UniPROBE Database

Database Browser

Protein ▾	UniProtID	Domain	Species	Description	Publication
Aft1	P22149	AFT	Saccharomyces cerevisiae	Transcription factor involved in iron utilization and homeostasis; binds the consensus site PyPuCACCCPu and activates the expression of target genes in response to changes in iron availability	Zhu et al., GR 2009
Alx3	O70137	Homeo	Mus musculus	aristaless 3	Berger et al., Cell 2008
Alx4	O35137	Homeo	Mus musculus	aristaless 4	Berger et al., Cell 2008
Arid3a	Q62431	BRIGHT	Mus musculus	AT rich interactive domain 3A (Bright like)	Badis et al., Science 2009
Arid5a	Q8BI45	BRIGHT	Mus musculus	AT rich interactive domain 5A (Mrf1 like)	Badis et al., Science 2009
Aro80	Q04052	Zn2Cys6	Saccharomyces cerevisiae	Zinc finger transcriptional activator of the Zn2Cys6 family; activates transcription of aromatic amino acid catabolic genes in the presence of aromatic amino acids	Zhu et al., GR 2009
Arx	O35085	Homeo	Mus musculus	aristaless related homeobox gene (Drosophila)	Berger et al., Cell 2008
Ascl2	O35885	HLH	Mus musculus	achaete-scute complex homolog-like 2 (Drosophila)	Badis et al., Science 2009
Asg1	P40467	Zn2Cys6	Saccharomyces cerevisiae	Proposed transcriptional activator, member of the Gal4p family of zinc cluster proteins	Zhu et al., GR 2009
Atf1	P81269	BRLZ, BZIP_1, BZIP_2	Mus musculus	activating transcription factor 1: Mus musculus activating transcription factor 1 (Atf1), mRNA	Badis et al., Science 2009
Bapx1	P97503	Homeo	Mus musculus	bagpipe homeobox gene 1 homolog (Drosophila)	Berger et al., Cell 2008
Barhl1	P63157	Homeo	Mus musculus	BarH-like 1 (Drosophila)	Berger et al., Cell 2008
Barhl2	Q8VIB5	Homeo	Mus musculus	BarH-like 2 (Drosophila)	Berger et al., Cell 2008
Barx1	Q9ER42	Homeo	Mus musculus	BarH-like homeobox 1	Berger et al., Cell 2008
Barx2	O08686	Homeo	Mus musculus	BarH-like homeobox 2	Berger et al., Cell 2008
Bas1	P22035	Myb	Saccharomyces cerevisiae	Myb-related transcription factor involved in regulating basal and induced expression of genes of the purine and histidine biosynthesis pathways; also involved in regulation of meiotic recombination at specific genes	Zhu et al., GR 2009
Bbx	Q8VBW5	HMG	Mus musculus	bobby sox homolog (Drosophila)	Badis et al., Science 2009
Bcl6b	O88282	ZnF_C2H2	Mus musculus	B-cell CLL/lymphoma 6, member B: Mus musculus B-cell CLL/lymphoma 6, member B, mRNA	Badis et al., Science 2009
Bhlhb2	O35185	HLH	Mus musculus	basic helix-loop-helix domain containing, class B2: Mus musculus basic helix-loop-helix domain containing, class B2	Badis et al., Science 2009
Bsx	Q810B3	Homeo	Mus musculus	brain specific homeobox	Berger et al., Cell 2008
Cart1	Q8C8B0	Homeo	Mus musculus	cartilage homeo protein 1	Berger et al., Cell 2008
Cbf1	P17106	HLH	Saccharomyces cerevisiae	Helix-loop-helix protein that binds the motif CACRTG, which is present at several sites including MET gene promoters and centromere DNA element I (CDEI); required for nucleosome positioning at this motif; targets Isw1p to DNA	Berger et al., Nat Biotech 2006
Cbf1	P17106	HLH	Saccharomyces cerevisiae	Helix-loop-helix protein that binds the motif CACRTG, which is present at several sites including MET gene promoters and centromere DNA element I (CDEI); required for nucleosome positioning at this motif; targets Isw1p to DNA	Zhu et al., GR 2009
Cdx1	P18111	Homeo	Mus musculus	caudal type homeo box 1	Berger et al., Cell 2008
Cdx2	P43241	Homeo	Mus musculus	caudal type homeo box 2	Berger et al., Cell 2008
Ceh-22	P41936	Homeo	Caenorhabditis elegans	Homeobox protein ceh-22: C.Elegans Homeobox	Berger et al., Nat Biotech 2006
Cep3	P40969	Zn2Cys6	Saccharomyces cerevisiae	Essential kinetochore protein, component of the CBF3 complex that binds the CDEIII region of the centromere; contains an N-terminal Zn2Cys6 type zinc finger domain, a C-terminal acidic domain, and ...	Zhu et al., GR 2009
Cgd2_3490	Q5CTD3	AP2	Cryptosporidium parvum	putative transcription factor Cryptosporidium parvum, single AP2 domain, orthologous to PF14_0633 in Plasmodium falciparum	De Silva et al., PNAS 2008
Cha4	P43634	Zn2Cys6	Saccharomyces cerevisiae	DNA binding transcriptional activator, mediates serine/threonine activation of the catabolic L-serine (L-threonine) deaminase (CHA1); Zinc-finger protein with Zn[2]-Cys[6] fungal-type binuclear clu...	Zhu et al., GR 2009
CND-1	P46581	bHLH	Caenorhabditis elegans	C. elegans Neuro D homolog: cnd-1 encodes a basic helix-loop-helix protein that is most closely related to the vertebrate NeuroD transcription factors; during development, CND-1 is predicted to function as a transcriptional regulator whose activity is required for several aspects of motor neuron fate specification, including cell division patterns, proper spatiotemporal expression of fate-specific markers, and normal axonal morphology and pathfinding; CND-1::GFP expression begins in early embryogenesis (<20 cells) in four AB descendants and then continues in mitotically active AB-derived neuronal precursors, unidentified nuclei during gastrulation and enclosure, and postmitotic neurons in the head and ventral cord; at hatching CND-1::GFP expression is visible in ventral cord neurons, but this expression disappears completely by the end of the first larval stage; CND-1::GFP does not appear to be expressed in any non-neuronal ectodermal cells, as its expression does not overlap with that of LIN-26.	Grove et al., Cell 2009
Cphx	Q8BX39	Homeo	Mus musculus	cytoplasmic polyadenylated homeobox	Berger et al., Cell 2008
Crx	O54751	Homeo	Mus musculus	cone-rod homeobox containing gene	Berger et al., Cell 2008
Cup9	P41817	Homeo	Saccharomyces cerevisiae	Homeodomain-containing transcriptional repressor of PTR2, which encodes a major peptide transporter; imported peptides activate ubiquitin-dependent proteolysis, resulting in degradation of Cup9p an...	Zhu et al., GR 2009
Cutl1	P70403	Homeo	Mus musculus	cut-like 1 (Drosophila)	Berger et al., Cell 2008
Dbx1	P52950	Homeo	Mus musculus	developing brain homeobox 1	Berger et al., Cell 2008
Dbx2	Q8BZD0	Homeo	Mus musculus	developing brain homeobox 2	Berger et al., Cell 2008
Dlx1	Q64317	Homeo	Mus musculus	distal-less homeobox 1	Berger et al., Cell 2008
Dlx2	P40764	Homeo	Mus musculus	distal-less homeobox 2	Berger et al., Cell 2008
Dlx3	Q64205	Homeo	Mus musculus	distal-less homeobox 3	Berger et al., Cell 2008
Dlx4	P70436	Homeo	Mus musculus	distal-less homeobox 4	Berger et al., Cell 2008
Dlx5	P70396	Homeo	Mus musculus	distal-less homeobox 5	Berger et al., Cell 2008
Dmbx1	Q91ZK4	Homeo	Mus musculus	diencephalon/mesencephalon homeobox 1	Berger et al., Cell 2008
Dobox4		Homeo	Mus musculus	EST CN720839: E0811A05-5 NIA Mouse four-cell-Embryo cDNA library (Long) Mus musculus cDNA clone NIA:E0811A05 IMAGE:30906628 5-, mRNA sequence	Berger et al., Cell 2008
Dobox5		Homeo	Mus musculus	Formerly named ENSMUST00000057964.5	Berger et al., Cell 2008
Duxl	Q3UY88	Homeo	Mus musculus	RIKEN cDNA 1110051B16 gene	Berger et al., Cell 2008
E2F2	P56931	E2F_TDP	Mus musculus	E2F transcription factor 2	Badis et al., Science 2009
E2F3	O35261	E2F_TDP	Mus musculus	E2F transcription factor 3	Badis et al., Science 2009
Ecm22	Q05958	Zn2Cys6	Saccharomyces cerevisiae	Sterol regulatory element binding protein, regulates transcription of the sterol biosynthetic genes ERG2 and ERG3; member of the fungus-specific Zn[2]-Cys[6] binuclear cluster family of transcription	Zhu et al., GR 2009
Egr1	P08046	ZnF_C2H2	Mus musculus	early growth response 1	Badis et al., Science 2009
Ehf	Q922E8	ETS	Mus musculus	ets homologous factor: Mus musculus EHF (Ehf) mRNA, complete cds	Badis et al., Science 2009
Elf3	Q3UPW2	AT_hook, ETS	Mus musculus	E74-like factor 3	Badis et al., Science 2009
Emx2	Q04744	Homeo	Mus musculus	empty spiracles homolog 2 (Drosophila)	Berger et al., Cell 2008
En1	P09065	Homeo	Mus musculus	engrailed 1	Berger et al., Cell 2008
En2	P09066	Homeo	Mus musculus	engrailed 2	Berger et al., Cell 2008
Eomes	O54839	TBOX	Mus musculus	Eomesodermin homolog (Xenopus laevis): Mus musculus similar to Eomesodermin homolog (LOC235673), mRNA	Badis et al., Science 2009
Esrra	O08580	ZnF_C4	Mus musculus	estrogen related receptor, alpha: Mus musculus estrogen related receptor, alpha (Esrra), mRNA.	Badis et al., Science 2009
Esx1	Q9Z2U3	Homeo	Mus musculus	extraembryonic, spermatogenesis, homeobox 1	Berger et al., Cell 2008
Evx1	P23683	Homeo	Mus musculus	even skipped homeotic gene 1 homolog	Berger et al., Cell 2008
Evx2	P49749	Homeo	Mus musculus	even skipped homeotic gene 2 homolog	Berger et al., Cell 2008
Fhl1	P39521	Fork-head	Saccharomyces cerevisiae	Putative transcriptional regulator with similarity to DNA-binding domain of Drosophila forkhead; required for rRNA processing	Zhu et al., GR 2009
Fkh1	P40466	Fork-head	Saccharomyces cerevisiae	Transcription factor of the forkhead family that regulates the cell cycle and pseudohyphal growth; also involved in chromatin silencing at HML and HMR	Zhu et al., GR 2009
Fkh2	P41813	Fork_head	Saccharomyces cerevisiae	Transcription factor of the forkhead family that regulates the cell cycle and pseudohyphal growth; also involved in chromatin silencing at HML and HMR; potential Cdc28p substrate	Zhu et al., GR 2009
Foxa2	P35583	FH	Mus musculus	forkhead box A2: Mus musculus forkhead box A2 (Foxa2)	Badis et al., Science 2009
Foxj1	Q61660	FH	Mus musculus	forkhead box J1: forkhead box J1 [Mus musculus]	Badis et al., Science 2009
Foxj3	Q8BUR3	FH	Mus musculus	forkhead box J3: Mus musculus similar to Putative forkhead box protein KIAA1041 (LOC230700), mRNA	Badis et al., Science 2009
Foxk1	P42128	FH	Mus musculus	forkhead box K1: Mus musculus forkhead box K1 (Foxk1), transcript variant 1, mRNA.	Badis et al., Science 2009
Foxl1	Q64731	FH	Mus musculus	forkhead box L1: M.musculus fkh-6 gene	Badis et al., Science 2009
Gabpa	Q00422	ETS	Mus musculus	GA repeat binding protein, alpha: Mus musculus GA repeat binding protein, alpha	Badis et al., Science 2009
Gal4	P04386	Zn2Cys6	Saccharomyces cerevisiae	DNA-binding transcription factor required for the activation of the GAL genes in response to galactose; repressed by Gal80p and activated by Gal3p	Zhu et al., GR 2009
Gat1	P43574	Zf_GATA	Saccharomyces cerevisiae	Transcriptional activator of genes involved in nitrogen catabolite repression, member of the GATA family of DNA binding proteins; activity and localization regulated by nitrogen limitation and Ure2p	Zhu et al., GR 2009
Gat3	Q07928	Zf_GATA	Saccharomyces cerevisiae	Protein containing GATA family zinc finger motifs	Zhu et al., GR 2009
Gat4	P40569	Zf_GATA	Saccharomyces cerevisiae	Protein containing GATA family zinc finger motifs	Zhu et al., GR 2009
Gata3	P23772	ZnF_GATA	Mus musculus	GATA binding protein 3: Mus musculus GATA binding protein 3 (Gata3), mRNA.	Badis et al., Science 2009
Gata5	P97489	ZnF_GATA	Mus musculus	GATA binding protein 5	Badis et al., Science 2009
Gata6	Q61169	ZnF_GATA	Mus musculus	GATA binding protein 6	Badis et al., Science 2009
Gbx1	P82976	Homeo	Mus musculus	gastrulation brain homeobox 1	Berger et al., Cell 2008
Gbx2	P48031	Homeo	Mus musculus	gastrulation brain homeobox 2	Berger et al., Cell 2008
Gcm1	P70348	GCM	Mus musculus	glial cells missing homolog 1 (Drosophila)	Badis et al., Science 2009
Gcn4	P03069	bZIP	Saccharomyces cerevisiae	Transcriptional activator of amino acid biosynthetic genes in response to amino acid starvation; expression is tightly regulated at both the transcriptional and translational levels	Zhu et al., GR 2009
Glis2	Q8R4X9	ZnF_C2H2	Mus musculus	GLIS family zinc finger 2: GLIS family zinc finger 2 (Glis2), mRNA	Badis et al., Science 2009
Gln3	P18494	Zf_GATA	Saccharomyces cerevisiae	Transcriptional activator of genes regulated by nitrogen catabolite repression (NCR), localization and activity regulated by quality of nitrogen source	Zhu et al., GR 2009
Gm397	Q3URS2	ZnF_C2H2	Mus musculus	gene model 397, (NCBI): Mus musculus similar to Zinc finger protein 58 (Zfp-58) (Zinc finger protein Mfg-1) (LOC212386), mRNA	Badis et al., Science 2009
Gmeb1	Q9JL60	SAND	Mus musculus	glucocorticoid modulatory element binding protein 1: transcription termination factor 1, mRNA (cDNA clone MGC:69635 IMAGE:6847867), complete cds	Badis et al., Science 2009
Gsc	Q02591	Homeo	Mus musculus	goosecoid	Berger et al., Cell 2008
Gsh2	P31316	Homeo	Mus musculus	genomic screened homeo box 2	Berger et al., Cell 2008
Gsm1		Zn2Cys6	Saccharomyces cerevisiae	Putative zinc cluster protein of unknown function; computationally predicted involvement in oxidative phosphorylation, based on patterns of expression and sequence analysis	Zhu et al., GR 2009
Gzf3	P42944	Zf_GATA	Saccharomyces cerevisiae	GATA zinc finger protein and Dal80p homolog that negatively regulates nitrogen catabolic gene expression by competing with Gat1p for GATA site binding; function requires a repressive carbon source;...	Zhu et al., GR 2009
Hal9	Q12180	Zn2Cys6	Saccharomyces cerevisiae	Putative transcription factor containing a zinc finger; overexpression increases salt tolerance through increased expression of the ENA1 (Na+/Li+ extrusion pump) gene while gene disruption decrease...	Zhu et al., GR 2009
Hbp1	Q8R316	HMG	Mus musculus	high mobility group box transcription factor 1	Badis et al., Science 2009
Hdx	Q14B70	Homeo	Mus musculus	Highly divergent homeobox	Berger et al., Cell 2008
Hic1	Q9R1Y5	ZnF_C2H2	Mus musculus	hypermethylated in cancer 1: Mus musculus hypermethylated in cancer 1 (Hic1)	Badis et al., Science 2009
HLH-1	P22980	bHLH	Caenorhabditis elegans	Helix Loop Helix Protein 1: hlh-1 encodes a basic helix-loop-helix (bHLH) transcription factor that is the C. elegans ortholog of the myogenic regulatory factor (MRF) subgroup of bHLH proteins; in C. elegans, HLH-1 activity is required during embryogenesis for proper bodywall muscle development and function, but not for bodywall muscle cell fate specification, per se: hlh-1 null mutants generate the normal number of bodywall muscle cells, but the arrangement of these cells is disrupted and mutant animals exhibit weak and disorganized muscle contractions; however, ectopic expression of HLH-1 in the embryo is sufficient to convert nearly all embryonic cell types to a bodywall muscle-like fate; in regulating bodywall myogenesis, genetic studies indicate that HLH-1 acts together with the UNC-120/SRF and HND-1/HAND transcription factors, both of which can also induce muscle-like fates when overexpressed in embryos; in addition, in some cell lineages, hlh-1 likely lies downstream of the PAL-1 homeodomain protein required for specification of the C and D founder cell fates; HLH-1 is expressed in nuclei and first appears in bodywall muscle precursors beginning at the ~80-cell stage of embryogenesis; expression then continues in these cells and their differentiated descendants throughout embryonic, larval, and adult stages of development.	Grove et al., Cell 2009
HLH-10	Q23579	bHLH	Caenorhabditis elegans	Helix Loop Helix Protein 10: none available	Grove et al., Cell 2009
HLH-11	P34474	bHLH	Caenorhabditis elegans	Helix Loop Helix Protein 11: none available	Grove et al., Cell 2009
HLH-14	Q09961	bHLH	Caenorhabditis elegans	Helix Loop Helix Protein 14: hlh-14 encodes a basic helix-loop-helix (bHLH) transcription factor that is one of five C. elegans Achaete-Scute family homologs; HLH-14 activity is required generally for normal egg-laying, movement, body morphology, and larval development; more specifically, HLH-14 is required for proper neuronal development, particularly for regulation of the asymmetric cell division that gives rise to the PVQ/HSN/PHB neuroblasts and for normal differentiation of these neuroblast descendants, including their cell division patterns, migrations, and neurotransmitter expression; in specifying neuronal cell fates, genetic evidence suggests that hlh-14 acts together with hlh-2, which encodes the C. elegans E/Daughterless ortholog; HLH-14 is expresed exclusively in the embryo and detected in the left and right PVQ/HSN/PHB neuroblasts and their descendants, as well as in other cells identified, tentatively, as anterior neuroblasts and posterior neuroblasts such as Caapa.	Grove et al., Cell 2009
HLH-15	Q18590	bHLH	Caenorhabditis elegans	Helix Loop Helix Protein 15 : none available	Grove et al., Cell 2009
HLH-19	Q20941	bHLH	Caenorhabditis elegans	Helix Loop Helix Protein 19 : none available	Grove et al., Cell 2009
HLH-2	Q17588	bHLH	Caenorhabditis elegans	Helix Loop Helix Protein 2: hlh-2 encodes a Class I basic helix-loop-helix (bHLH) transcription factor that is the C. elegans ortholog of the mammalian E and Drosophila Daughterless transcriptional activators; HLH-2 activity is required for cell fate specifications occuring during embryonic and larval development that affect such processes as gonadogenesis, male tail formation, and programmed cell death; HLH-2 has been shown to dimerize with at least two C. elegans Acheate-scute homologs, LIN-32, a neural-specific protein with which it functions in male tail development and HLH-3, with which it is coexpressed in the nuclei of embryonic neuronal prescursors and with which it regulates the transcription of the EGL-1 cell death activator in the NSM sister cells; in gonadogenesis, HLH-2 is required for bestowing proAC competence on the cells that undergo the AC/VU (anchor cell/ventral uterine precursor) cell fate decision, for specification, differentiation, and function of the distal tip cell (DTC) and AC, including transcriptional regulation of the LAG-2 Delta-like ligand in the latter, and for formation of the uterine seam cell (utse); genetic analysis also suggests that HLH-2 functions with HLH-14, an additional Acaete-scute homolog, to specify the PVQ/HSN/PHB neuroblast cell lineage; HLH-2 is expressed in all nuclei of early embryos until the ~200-cell stage, when expression becomes increasingly restricted to neuronal cells and their immediate precursors; later expression is detected in, but not limited to, pharyngeal cells, anterior neurons, vulval and uterine muscles, the DTCs, the presumptive and mature AC, the Q neuroblast, and enteric muscles; comparative analysis of transcriptional and translational reporters indicates that hlh-2 is expressed in both the anchor cell and the ventral uterine (VU) precursor, but that expression in the latter is subject to post-transcriptional down-regulation; HLH-2 accumulation in the presumptive AC is the first detectable difference between the AC and VU precursors during the lateral specification event that distinguishes these two cell fates.	Grove et al., Cell 2009
HLH-25	Q18054	bHLH	Caenorhabditis elegans	Helix Loop Helix Protein 25: hlh-25 encodes a REF-1-like protein with two bHLH domains that partially represses lag-2 transcription in ABa descendants (in response to a Notch signal, redundantly with HLH-27); lag-2 repression by HLH-25 may require UNC-37; HLH-25's paralogs include HLH-26 through HLH-29 and (more distantly) REF-1; hlh-25 is transcribed in the early MS lineage, has clustered binding sites for MED-1/2 in its promoter region, can be activated by ectopic MED-1, and loses activity in MED-1/2-deficient genetic backgrounds; HLH-25 is expressed in ABp granddaughters ~25 minutes after ABp first contacts an APX-1-expressing cell, and in ABa descendants after a second Notch interaction; HLH-25 is also expressed in four EMS granddaughters (MSaa, MSap, MSpa, MSpp) beginning at the 24-cell stage; ectopic HLH-25 can induce body muscle development in skn-1(RNAi);pal-1(RNAi) embryos that would otherwise lack muscle; HLH-25 is required for embryonic viability in mass RNAi assays.	Grove et al., Cell 2009
HLH-26	Q18053	bHLH	Caenorhabditis elegans	Helix Loop Helix Protein 26: hlh-26 encodes a REF-1-like protein with two bHLH domains that represses lag-2 transcription in ABa descendants (in response to a Notch signal, redundantly with REF-1, HLH-27, HLH-29, and perhaps HLH-28) and tbx-37 transcription in EMS descendants (independently of Notch, redundantly with REF-1, HLH-27, HLH-29, and perhaps HLH-28); lag-2 repression by HLH-26 may require UNC-37; HLH-26's paralogs include HLH-25 through HLH-29 and (more distantly) REF-1; HLH-26 is not visibly expressed in EMS descendants, and has no obvious function in mass RNAi assays.	Grove et al., Cell 2009
HLH-27	Q18056	bHLH	Caenorhabditis elegans	Helix Loop Helix Protein 27: hlh-27 encodes a REF-1-like protein with two bHLH domains, that represses lag-2 transcription in ABa descendants (in response to a Notch signal, redundantly with REF-1, HLH-25, HLH-26, HLH-29, and perhaps HLH-28) and tbx-37 transcription in EMS descendants (independently of Notch, redundantly with REF-1, HLH-26, HLH-29, and perhaps HLH-28); lag-2 repression by HLH-27 may require UNC-37; HLH-27's paralogs include HLH-25 through HLH-29 and (more distantly) REF-1; hlh-27 is transcribed in the early MS lineage, probably due to MED-1/2 binding of clustered sites in the hlh-27 promoter region; HLH-27 is expressed in ABp granddaughters ~25 minutes after ABp first contacts an APX-1-expressing cell, and in ABa descendants after a second Notch interaction; HLH-27 is also expressed in four EMS granddaughters (MSaa, MSap, MSpa, MSpp) beginning at the 24-cell stage, in a SKN-1-dependent manner; HLH-27 is required for embryonic viability in mass RNAi assays.	Grove et al., Cell 2009
HLH-29	Q19917	bHLH	Caenorhabditis elegans	Helix Loop Helix Protein 29: hlh-29 encodes a REF-1-like protein with two bHLH domains that represses lag-2 transcription in ABa descendants (in response to a Notch signal, redundantly with REF-1, HLH-26, and HLH-27) and tbx-37 transcription in EMS descendants (independently of Notch, redundantly with REF-1, HLH-26, HLH-27, and perhaps HLH-28); HLH-29 is identical to residues 24-262 of HLH-28, shares near-identical promoter regions in a inverted duplex, and is likely to be highly redundant with HLH-28; HLH-29 (with HLH-28) is also required for late embryonic viability, and for normal fat metabolism, yolk protein transport, gonadal and vulval development, bordering behavior, and chemosensory responses, and repression of tax-4 and osm-9 transcription; lag-2 repression by HLH-29 may require UNC-37; HLH-29's paralogs include HLH-25 through HLH-28 and (more distantly) REF-1; hlh-29 is transcribed in the early MS and E lineages, probably due to MED-1/2 binding of clustered sites in the hlh-28/hlh-29 shared promoter region; HLH-29 is expressed in ABp granddaughters ~25 minutes after ABp first contacts an APX-1-expressing cell, and in ABa descendants after a second Notch interaction; HLH-29 is also expressed in all EMS granddaughters beginning at the 24-cell stage, in a SKN-1-dependent manner; furthermore, HLH-29 is expressed in amphid and phasmid neurons, ALA and PVT neurons, chemosensory and mechanosensory neurons, ASI, ASK, PHA, PQR, and neurons of the anterior pharynx, as well as in vulva, somatic gonad, rectal glands, intestine, and larval pharyngeal muscle PM1, ventral posterior coelomocytes, spermatheca, and vulval muscles; hlh-28/29 mRNA is present throughout development, but varies roughly 30-fold in quantity, with 3.5-fold more mRNA in L1 larvae than in adults; ectopic HLH-29 can rescue the intestinal defect of ref-1(RNAi) embryos; hlh-28/29 transcription is inhibited by LIN-12 and MED-1.	Grove et al., Cell 2009
HLH-3	P90977	bHLH	Caenorhabditis elegans	Helix Loop Helix Protein 3: hlh-3 encodes a basic helix-loop-helix transcription factor homologous to Drosophila Achaete-scute; in vitro, HLH-3 can heterodimerize, and bind an E-box-containing probe, with HLH-2, the C. elegans E/daughterless ortholog with which it is coexpressed in the nuclei of embryonic neuronal precursors.	Grove et al., Cell 2009
HLH-30	P91527	bHLH	Caenorhabditis elegans	Helix Loop Helix Protein 30: W02C12.3 is orthologous to the human gene TRANSCRIPTION FACTOR BINDING TO IGHM ENHANCER 3 (TFE3; OMIM:314310), which when mutated leads to disease.	Grove et al., Cell 2009
HLH-4	P34555	bHLH	Caenorhabditis elegans	Helix Loop Helix Protein 4: none available	Grove et al., Cell 2009
HLH-8	Q11094	bHLH	Caenorhabditis elegans	Helix Loop Helix Protein 8: The hlh-8 gene encodes a helix-loop-helix protein required for normal muscle development, and hence for normal defecation and egg-laying.	Grove et al., Cell 2009
Hlx1	Q61670	Homeo	Mus musculus	H2.0-like homeo box 1 (Drosophila)	Berger et al., Cell 2008
Hlxb9	Q9QZW9	Homeo	Mus musculus	homeobox gene HB9	Berger et al., Cell 2008
Hmbox1	Q8BJA3	Homeo	Mus musculus	homeobox containing 1	Berger et al., Cell 2008
Hmx1	O70218	Homeo	Mus musculus	H6 homeo box 1	Berger et al., Cell 2008
Hmx2	P43687	Homeo	Mus musculus	H6 homeo box 2	Berger et al., Cell 2008
Hmx3	P42581	Homeo	Mus musculus	H6 homeo box 3	Berger et al., Cell 2008
Hnf4a	P49698	ZnF_C4	Mus musculus	hepatic nuclear factor 4, alpha: Mus musculus hepatic nuclear factor 4, alpha (Hnf4a), mRNA	Badis et al., Science 2009
Homez	Q80W88	Homeo	Mus musculus	homeodomain leucine zipper-encoding gene	Berger et al., Cell 2008
Hoxa1	P09022	Homeo	Mus musculus	homeo box A1	Berger et al., Cell 2008
Hoxa10	P31310	Homeo	Mus musculus	homeo box A10	Berger et al., Cell 2008
Hoxa11	P31311	Homeo	Mus musculus	homeo box A11	Berger et al., Cell 2008
Hoxa13	PQ62424	Homeo	Mus musculus	homeo box A13	Berger et al., Cell 2008
Hoxa2	P31245	Homeo	Mus musculus	homeo box A2	Berger et al., Cell 2008
Hoxa3	P02831	Homeo	Mus musculus	homeo box A3: Mus musculus homeo box A3 (Hoxa3)	Badis et al., Science 2009
Hoxa3	P02831	Homeo	Mus musculus	homeo box A3: Mus musculus homeo box A3 (Hoxa3)	Berger et al., Cell 2008
Hoxa4	P06798	Homeo	Mus musculus	homeo box A4	Berger et al., Cell 2008
Hoxa5	P09021	Homeo	Mus musculus	homeo box A5	Berger et al., Cell 2008
Hoxa6	P09092	Homeo	Mus musculus	homeo box A6	Berger et al., Cell 2008
Hoxa7	P02830	Homeo	Mus musculus	homeo box A7	Berger et al., Cell 2008
Hoxa9	P09631	Homeo	Mus musculus	homeo box A9	Berger et al., Cell 2008
Hoxb13	P70321	Homeo	Mus musculus	homeo box B13	Berger et al., Cell 2008
Hoxb3	P09026	Homeo	Mus musculus	homeo box B3	Berger et al., Cell 2008
Hoxb4	P10284	Homeo	Mus musculus	homeo box B4	Berger et al., Cell 2008
Hoxb5	P09079	Homeo	Mus musculus	homeo box B5	Berger et al., Cell 2008
Hoxb6	P09023	Homeo	Mus musculus	homeo box B6	Berger et al., Cell 2008
Hoxb7	P09024	Homeo	Mus musculus	homeo box B7	Berger et al., Cell 2008
Hoxb8	P09632	Homeo	Mus musculus	homeo box B8	Berger et al., Cell 2008
Hoxb9	P20615	Homeo	Mus musculus	homeo box B9	Berger et al., Cell 2008
Hoxc10	P31257	Homeo	Mus musculus	homeo box C10	Berger et al., Cell 2008
Hoxc11	P31312	Homeo	Mus musculus	homeo box C11	Berger et al., Cell 2008
Hoxc12	P31313	Homeo	Mus musculus	homeo box C12	Berger et al., Cell 2008
Hoxc13	P50207	Homeo	Mus musculus	homeo box C13	Berger et al., Cell 2008
Hoxc4	Q08624	Homeo	Mus musculus	homeo box C4	Berger et al., Cell 2008
Hoxc5	P32043	Homeo	Mus musculus	homeo box C5	Berger et al., Cell 2008
Hoxc6	P10629	Homeo	Mus musculus	homeo box C6	Berger et al., Cell 2008
Hoxc8	P09025	Homeo	Mus musculus	homeo box C8	Berger et al., Cell 2008
Hoxc9	P09633	Homeo	Mus musculus	homeo box C9	Berger et al., Cell 2008
Hoxd1	Q01822	Homeo	Mus musculus	homeo box D1	Berger et al., Cell 2008
Hoxd10	P28359	Homeo	Mus musculus	homeo box D10	Berger et al., Cell 2008
Hoxd11	P23813	Homeo	Mus musculus	homeo box D11	Berger et al., Cell 2008
Hoxd12	P23812	Homeo	Mus musculus	homeo box D12	Berger et al., Cell 2008
Hoxd13	P70217	Homeo	Mus musculus	homeo box D13	Berger et al., Cell 2008
Hoxd3	P09027	Homeo	Mus musculus	homeo box D3: M.musculus Hoxd-3 mRNA	Berger et al., Cell 2008
Hoxd8	P23463	Homeo	Mus musculus	homeo box D8	Berger et al., Cell 2008
Ipf1	P52946	Homeo	Mus musculus	insulin promoter factor 1, homeodomain transcription factor	Berger et al., Cell 2008
IRC900814		SAND	Mus musculus	Arhgef12	Badis et al., Science 2009
Irf3	P70671	IRF	Mus musculus	interferon regulatory factor 3	Badis et al., Science 2009
Irf4	Q64287	IRF	Mus musculus	interferon regulatory factor 4	Badis et al., Science 2009
Irf5	P56477	IRF	Mus musculus	interferon regulatory factor 5	Badis et al., Science 2009
Irf6	Q8C2Z7	IRF	Mus musculus	interferon regulatory factor 6	Badis et al., Science 2009
Irx2	P81066	Homeo	Mus musculus	Iroquois related homeobox 2 (Drosophila)	Berger et al., Cell 2008
Irx3	P81067	Homeo	Mus musculus	Iroquois related homeobox 3 (Drosophila)	Berger et al., Cell 2008
Irx4	Q9QY61	Homeo	Mus musculus	Iroquois related homeobox 4 (Drosophila)	Berger et al., Cell 2008
Irx5	Q9JKQ4	Homeo	Mus musculus	Iroquois related homeobox 5 (Drosophila)	Berger et al., Cell 2008
Irx6	Q9ER75	Homeo	Mus musculus	Iroquois related homeobox 6 (Drosophila)	Berger et al., Cell 2008
Isgf3g	Q61179	IRF	Mus musculus	interferon dependent positive acting transcription factor 3 gamma: Mus musculus interferon dependent positive acting transcription factor 3 gamma (Isgf3g), mRNA	Badis et al., Science 2009
Isl2	Q9CXV0	Homeo	Mus musculus	insulin related protein 2 (islet 2)	Berger et al., Cell 2008
Isx	A1A546	Homeo	Mus musculus	intestine-specific homeobox	Berger et al., Cell 2008
Jundm2	P97875	BRLZ, BZIP_1, BZIP_2	Mus musculus	Jun dimerization protein 2: Mus musculus Jun dimerization protein 2 (Jundp2-pending), mRNA	Badis et al., Science 2009
Klf7	Q99JB0	ZnF_C2H2	Mus musculus	Kruppel-like factor 7 (ubiquitous): Mus musculus Kruppel-like factor 7 (ubiquitous) (Klf7), mRNA	Badis et al., Science 2009
Lbx2	Q32M12	Homeo	Mus musculus	ladybird homeobox homolog 2 (Drosophila)	Berger et al., Cell 2008
Lef1	P27782	HMG	Mus musculus	lymphoid enhancer binding factor 1	Badis et al., Science 2009
Leu3	P08638	Zn2Cys6	Saccharomyces cerevisiae	Zinc-finger transcription factor that regulates genes involved in branched chain amino acid biosynthesis and ammonia assimilation; positively regulated by alpha-isopropylmalate, an intermediate in ...	Zhu et al., GR 2009
Lhx1	P63006	Homeo	Mus musculus	LIM homeobox protein 1	Berger et al., Cell 2008
Lhx2	Q9Z0S2	Homeo	Mus musculus	LIM homeobox protein 2	Berger et al., Cell 2008
Lhx3	P50481	Homeo	Mus musculus	LIM homeobox protein 3	Berger et al., Cell 2008
Lhx4	P53776	Homeo	Mus musculus	LIM homeobox protein 4	Berger et al., Cell 2008
Lhx5	P61375	Homeo	Mus musculus	LIM homeobox protein 5	Berger et al., Cell 2008
Lhx6	Q9R1R0	Homeo	Mus musculus	LIM homeobox protein 6	Berger et al., Cell 2008
Lhx8	O35652	Homeo	Mus musculus	LIM homeobox protein 8	Berger et al., Cell 2008
Lhx9	Q9WUH2	Homeo	Mus musculus	LIM homeobox protein 9	Berger et al., Cell 2008
LIN-32	Q10574	bHLH	Caenorhabditis elegans	abnormal cell LINeage: lin-32 encodes a basic helix-loop-helix transcription factor that is required for development of several types of neurons, including the touch receptor neurons and the male sensory ray neurons.	Grove et al., Cell 2009
Lmx1a	Q9JKU8	Homeo	Mus musculus	LIM homeobox transcription factor 1 alpha	Berger et al., Cell 2008
Lmx1b	O88609	Homeo	Mus musculus	LIM homeobox transcription factor 1 beta	Berger et al., Cell 2008
LuxR	P21308	HTH	Vibrio harveyi	HTH-type transcriptional regulator luxR: Regulatory protein of bacterial bioluminescence. It probably binds the autoinducer molecule and potentiates the transcription of the bioluminescence operon. (UniProt, 08/18/08)	Pompeani et al., Mol Microbiol 2008
Lys14	P40971	Zn2Cys6	Saccharomyces cerevisiae	Transcriptional activator involved in regulation of genes of the lysine biosynthesis pathway; requires 2-aminoadipate semialdehyde as co-inducer	Zhu et al., GR 2009
Mafb	P54841	BRLZ	Mus musculus	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein B (avian): Mus musculus v-maf musculoaponeurotic fibrosarcoma oncogene family, protein B (avian) (Mafb), mRNA	Badis et al., Science 2009
Mafk	Q61827	BRLZ	Mus musculus	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein K (avian)	Badis et al., Science 2009
Matalpha2		Homeo	Saccharomyces cerevisiae	Homeobox-domain protein that, with Mcm1p, represses a-specific genes in haploids; acts with A1p to repress transcription of haploid-specific genes in diploids; one of two genes encoded by the MATal...	Zhu et al., GR 2009
Max	P28574	HLH	Mus musculus	Max protein	Badis et al., Science 2009
Mbp1	P39678	HTH APSES-type	Saccharomyces cerevisiae	Transcription factor involved in regulation of cell cycle progression from G1 to S phase, forms a complex with Swi6p that binds to MluI cell cycle box regulatory element in promoters of DNA synthesis	Zhu et al., GR 2009
Mcm1	P11746	MADS	Saccharomyces cerevisiae	Transcription factor involved in cell-type-specific transcription and pheromone response; plays a central role in the formation of both repressor and activator complexes	Zhu et al., GR 2009
MDL-1	Q21663	bHLH	Caenorhabditis elegans	MAD-Like: mdl-1 encodes a basic helix-loop-helix (bHLH) protein similar to the vertebrate MAD transcriptional regulators; in vitro, MDL-1 can heterodimerize, and bind an E-box DNA sequence, with MXL-1, a C. elegans MAX-like bHLH protein; when expressed in rat embryonic fibroblasts, MDL-1 is able to suppress c-MYC/RAS-induced cell transformation, in a manner dependent upon an intact, predicted SIN3 interaction domain; mdl-1::gfp promoter fusions are expressed in a number of different tissues, including the posterior intestine, anterior and ventral cord neurons, pharyngeal and body wall muscles, somatic gonad precursors, and hypodermal cells; yeast one-hybrid and ChIP experiments indicate that DAF-3/Smad can bind the mdl-1 promoter; in addition, mdl-1 pharyngeal expression is specifically increased in daf-3(RNAi) animals, suggesting that DAF-3 directly negatively regulates mdl-1 transcription in pharyngeal tissue during dauer formation.	Grove et al., Cell 2009
Meis1	Q60954	Homeo	Mus musculus	myeloid ecotropic viral integration site 1	Berger et al., Cell 2008
Meox1	P32442	Homeo	Mus musculus	mesenchyme homeobox 1	Berger et al., Cell 2008
Met32	Q12041	Zf_C2H2	Saccharomyces cerevisiae	Zinc-finger DNA-binding protein, involved in regulating expression of the methionine biosynthetic genes, similar to Met31p	Zhu et al., GR 2009
Mga1	P53050	HSF_DNA-bind	Saccharomyces cerevisiae	Protein similar to heat shock transcription factor; multicopy suppressor of pseudohyphal growth defects of ammonium permease mutants	Zhu et al., GR 2009
Mig1	P27705	Zf_C2H2	Saccharomyces cerevisiae	Transcription factor involved in glucose repression; C2H2 zinc finger protein similar to mammalian Egr and Wilms tumor proteins	Zhu et al., GR 2009
Mig2	P53035	Zf_C2H2	Saccharomyces cerevisiae	Protein containing zinc fingers, involved in repression, along with Mig1p, of SUC2 (invertase) expression by high levels of glucose; binds to Mig1p-binding sites in SUC2 promoter	Zhu et al., GR 2009
Mig3	P39943	Zf_C2H2	Saccharomyces cerevisiae	Probable transcriptional repressor involved in response to toxic agents such as hydroxyurea that inhibit ribonucleotide reductase; phosphorylation by Snf1p or the Mec1p pathway inactivates Mig3p, a...	Zhu et al., GR 2009
Mrg1	P97367	Homeo	Mus musculus	myeloid ecotropic viral integration site-related gene 1	Berger et al., Cell 2008
Mrg2	P97368	Homeo	Mus musculus	myeloid ecotropic viral integration site-related gene 2	Berger et al., Cell 2008
Msx1	P13297	Homeo	Mus musculus	homeo box, msh-like 1	Berger et al., Cell 2008
Msx2	Q03358	Homeo	Mus musculus	homeo box, msh-like 2	Berger et al., Cell 2008
Msx3	P70354	Homeo	Mus musculus	homeo box, msh-like 3	Berger et al., Cell 2008
Mtf1	Q07243	ZnF_C2H2	Mus musculus	metal response element binding transcription factor 1: Metal response element binding transcription factor 1	Badis et al., Science 2009
MXL-1	P90982	bHLH	Caenorhabditis elegans	MaX-Like: mxl-1 encodes a basic helix-loop-helix protein similar to the vertebrate MAX transcriptional regulators; in vitro, MXL-1 can heterodimerize, and bind an E-box DNA sequence, with MDL-1, a C. elegans MAD-like bHLH protein; mxl-1::gfp reporter fusions are expressed in the posterior intestine and in head and tail neurons.	Grove et al., Cell 2009
MXL-3	Q18711	bHLH	Caenorhabditis elegans	MaX-Like: none available	Grove et al., Cell 2009
Myb	P06876	SANT	Mus musculus	myeloblastosis oncogene: Mus musculus myeloblastosis oncogene (Myb)	Badis et al., Science 2009
Mybl1	P51960	SANT	Mus musculus	myeloblastosis oncogene-like 1: myeloblastosis oncogene-like 1 (Mybl1), mRNA	Badis et al., Science 2009
Myf6	P15375	BASIC, HLH	Mus musculus	myogenic factor 6	Badis et al., Science 2009
Ndt80	P38830	NDT80_PhoG	Saccharomyces cerevisiae	Meiosis-specific transcription factor required for exit from pachytene and for full meiotic recombination; activates middle sporulation genes; competes with Sum1p for binding to promoters containin...	Zhu et al., GR 2009
Nhp6a	P11632	HMG_box	Saccharomyces cerevisiae	High-mobility group non-histone chromatin protein, functionally redundant with Nhp6Bp; homologous to mammalian high mobility group proteins 1 and 2; acts to recruit transcription factor Rcs1p to ce...	Zhu et al., GR 2009
Nhp6b	P11633	HMG_box	Saccharomyces cerevisiae	High-mobility group non-histone chromatin protein, functionally redundant with Nhp6Ap; homologous to mammalian high mobility group proteins 1 and 2; acts to recruit transcription factor Rcs1p to ce...	Zhu et al., GR 2009
Nkx1-1	O08713	Homeo	Mus musculus	NK1 transcription factor related, locus 1 (Drosophila)	Berger et al., Cell 2008
Nkx1-2	P42580	Homeo	Mus musculus	NK1 transcription factor related, locus 2 (Drosophila)	Berger et al., Cell 2008
Nkx2-2	P42586	Homeo	Mus musculus	NK2 transcription factor related, locus 2 (Drosophila)	Berger et al., Cell 2008
Nkx2-3	P97334	Homeo	Mus musculus	NK2 transcription factor related, locus 3 (Drosophila)	Berger et al., Cell 2008
Nkx2-4	Q9EQM3	Homeo	Mus musculus	NK2 transcription factor related, locus 4 (Drosophila)	Berger et al., Cell 2008
Nkx2-5	P42582	Homeo	Mus musculus	NK2 transcription factor related, locus 5 (Drosophila)	Berger et al., Cell 2008
Nkx2-6	P43688	Homeo	Mus musculus	NK2 transcription factor related, locus 6 (Drosophila)	Berger et al., Cell 2008
Nkx2-9	O70584	Homeo	Mus musculus	NK2 transcription factor related, locus 9 (Drosophila)	Berger et al., Cell 2008
Nkx3-1	P97436	Homeo	Mus musculus	NK-3 transcription factor, locus 1 (Drosophila): Mus musculus homeobox-containing protein Nkx-3.1 mRNA	Berger et al., Cell 2008
Nkx3-1	P97436	Homeo	Mus musculus	NK-3 transcription factor, locus 1 (Drosophila): Mus musculus homeobox-containing protein Nkx-3.1 mRNA	Badis et al., Science 2009
Nkx6-1	Q99MA9	Homeo	Mus musculus	NK6 transcription factor related, locus 1 (Drosophila)	Berger et al., Cell 2008
Nkx6-3	Q9D2W8	Homeo	Mus musculus	NK6 transcription factor related, locus 3 (Drosophila)	Berger et al., Cell 2008
Nr2f2	P43135	ZnF_C4	Mus musculus	nuclear receptor subfamily 2, group F, member 2: Mus musculus nuclear receptor subfamily 2, group F, member 2 (Nr2f2), transcript variant 1, mRNA.	Badis et al., Science 2009
Nrg1	Q03125	Zf_C2H2	Saccharomyces cerevisiae	Transcriptional repressor that recruits the Cyc8p-Tup1p complex to promoters; mediates glucose repression and negatively regulates a variety of processes including filamentous growth and alkaline p...	Zhu et al., GR 2009
Nsy-7	Q4PIU8	Distant similarity to homeodomain	Caenorhabditis elegans	Nsy-7: Putative uncharacterized protein	Lesch et al., GD 2009
Oaf1	P39720	Zn2Cys6	Saccharomyces cerevisiae	Oleate-activated transcription factor, acts alone and as a heterodimer with Pip2p; activates genes involved in beta-oxidation of fatty acids and peroxisome organization and biogenesis	Zhu et al., GR 2009
Obox1	Q9D350	Homeo	Mus musculus	oocyte specific homeobox 1	Berger et al., Cell 2008
Obox2	Q8VHG7	Homeo	Mus musculus	oocyte specific homeobox 2	Berger et al., Cell 2008
Obox3	Q8VHG6	Homeo	Mus musculus	oocyte specific homeobox 3	Berger et al., Cell 2008
Obox5	Q7TPZ5	Homeo	Mus musculus	oocyte specific homeobox 5	Berger et al., Cell 2008
Obox6	Q8VHG3	Homeo	Mus musculus	oocyte specific homeobox 6	Berger et al., Cell 2008
Oct-1	P14859	POU	Homo sapiens	"POU domain, class 2, transcription factor 1": "POU domain, class 2, transcription factor 1"	Berger et al., Nat Biotech 2006
Og2x	P70367	Homeo	Mus musculus	OG2 homeobox gene	Berger et al., Cell 2008
Osr1	Q9WVG7	ZnF_C2H2	Mus musculus	odd-skipped related 1 (Drosophila): Mus musculus HCM5520 gene, VIRTUAL TRANSCRIPT, partial sequence, genomic survey sequence	Badis et al., Science 2009
Osr2	Q91ZD1	ZnF_C2H2	Mus musculus	odd-skipped related 2 (Drosophila): odd-skipped related 2 (Drosophila) (Osr2), mRNA	Badis et al., Science 2009
Otp	O09113	Homeo	Mus musculus	orthopedia homolog (Drosophila)	Berger et al., Cell 2008
Otx1	P80205	Homeo	Mus musculus	orthodenticle homolog 1 (Drosophila)	Berger et al., Cell 2008
Otx2	P80206	Homeo	Mus musculus	orthodenticle homolog 2 (Drosophila)	Berger et al., Cell 2008
Pax4	P32115	Homeo, PAX	Mus musculus	paired box gene 4	Berger et al., Cell 2008
Pax6	P63015	Homeo, PAX	Mus musculus	paired box gene 6	Berger et al., Cell 2008
Pax7	P47239	Homeo, PAX	Mus musculus	paired box gene 7	Berger et al., Cell 2008
Pbf1	P34219	Myb	Saccharomyces cerevisiae	Myb domain-containing protein YBL054W	Zhu et al., GR 2009
Pbf2	P40059	Myb	Saccharomyces cerevisiae	Protein of unknown function, involved in telomeric gene silencing and filamentation	Zhu et al., GR 2009
Pbx1	P41778	Homeo	Mus musculus	pre B-cell leukemia transcription factor 1	Berger et al., Cell 2008
Pdr1	P12383	Zn2Cys6	Saccharomyces cerevisiae	Zinc cluster protein that is a master regulator involved in recruiting other zinc cluster proteins to pleiotropic drug response elements (PDREs) to fine tune the regulation of multidrug resistance ...	Zhu et al., GR 2009
PF14_0633	Q8IKH2	AP2	Plasmodium falciparum	putative Plasmodium falciparum transcription factor, single AP2 domain	De Silva et al., PNAS 2008
PFF0200c	Q6LFM5	AP2	Plasmodium falciparum	putative Plasmodium falciparum transcription factor, tandem double AP2 domain	De Silva et al., PNAS 2008
Phd1	P36093	HTH APSES-type	Saccharomyces cerevisiae	Transcriptional activator that enhances pseudohyphal growth; regulates expression of FLO11, an adhesin required for pseudohyphal filament formation; similar to StuA, an A. nidulans developmental re..	Zhu et al., GR 2009
Pho2	P07269	Homeo	Saccharomyces cerevisiae	Homeobox transcription factor; regulatory targets include genes involved in phosphate metabolism; binds cooperatively with Pho4p to the PHO5 promoter; phosphorylation of Pho2p facilitates interaction	Zhu et al., GR 2009
Pho4	P07270	HLH	Saccharomyces cerevisiae	Basic helix-loop-helix (bHLH) transcription factor; binds cooperatively with Pho2p to the PHO5 promoter; function is regulated by phosphorylation at multiple sites and by phosphate availability	Zhu et al., GR 2009
Phox2a	Q62066	Homeo	Mus musculus	paired-like homeobox 2a	Berger et al., Cell 2008
Phox2b	O35690	Homeo	Mus musculus	paired-like homeobox 2b	Berger et al., Cell 2008
Pitx1	P70314	Homeo	Mus musculus	paired-like homeodomain transcription factor 1	Berger et al., Cell 2008
Pitx2	P97474	Homeo	Mus musculus	paired-like homeodomain transcription factor 2	Berger et al., Cell 2008
Pitx3	O35160	Homeo	Mus musculus	paired-like homeodomain transcription factor 3	Berger et al., Cell 2008
Pknox1	O70477	Homeo	Mus musculus	Pbx/knotted 1 homeobox	Berger et al., Cell 2008
Pknox2	Q8BG99	Homeo	Mus musculus	Pbx/knotted 1 homeobox 2	Berger et al., Cell 2008
Plagl1	O35745	ZnF_C2H2	Mus musculus	Pleiomorphic adenoma gene-like 1: Mus musculus similar to zinc finger protein regulator of apoptosis and cell cycle arrest (Zac1), mRNA	Badis et al., Science 2009
Pou1f1	Q00286	Homeo, POU	Mus musculus	pituitary specific transcription factor 1	Berger et al., Cell 2008
Pou2f1	P25425	Homeo, POU	Mus musculus	POU domain, class 2, transcription factor 1	Berger et al., Cell 2008
Pou2f2	Q00196	Homeo, POU	Mus musculus	POU domain, class 2, transcription factor 2	Berger et al., Cell 2008
Pou2f3	P31362	Homeo, POU	Mus musculus	POU domain, class 2, transcription factor 3	Berger et al., Cell 2008
Pou3f1	P21952	Homeo, POU	Mus musculus	POU domain, class 3, transcription factor 1	Berger et al., Cell 2008
Pou3f2	P31360	Homeo, POU	Mus musculus	POU domain, class 3, transcription factor 2	Berger et al., Cell 2008
Pou3f3	P31361	Homeo, POU	Mus musculus	POU domain, class 3, transcription factor 3	Berger et al., Cell 2008
Pou3f4	P62515	Homeo, POU	Mus musculus	POU domain, class 3, transcription factor 4	Berger et al., Cell 2008
Pou4f3	P63955	Homeo, POU	Mus musculus	POU domain, class 4, transcription factor 3	Berger et al., Cell 2008
Pou6f1	Q07916	Homeo, POU	Mus musculus	POU domain, class 6, transcription factor 1	Berger et al., Cell 2008
Prop1	P97458	Homeo	Mus musculus	paired like homeodomain factor 1	Berger et al., Cell 2008
Prrx1	P63013	Homeo	Mus musculus	paired related homeobox 1	Berger et al., Cell 2008
Prrx2	Q06348	Homeo	Mus musculus	paired related homeobox 2	Berger et al., Cell 2008
Put3	P25502	Zn2Cys6	Saccharomyces cerevisiae	"Transcriptional activator of proline utilization genes, constitutively binds PUT1 and PUT2 promoter sequences and undergoes a conformational change to form the active state; has a Zn(2)-Cys(6) binu..."	Zhu et al., GR 2009
Rap1	P11938	Myb	Saccharomyces cerevisiae	"DNA-binding protein involved in either activation or repression of transcription, depending on binding site context; also binds telomere sequences and plays a role in telomeric position effect (sil..."	Zhu et al., GR 2009
Rap1	P11938	Myb	Saccharomyces cerevisiae	"DNA-binding protein involved in either activation or repression of transcription, depending on binding site context; also binds telomere sequences and plays a role in telomeric position effect (sil..."	Berger et al., Nat Biotech 2006
Rara	P11416	ZnF_C4	Mus musculus	retinoic acid receptor, alpha	Badis et al., Science 2009
Rax	O35602	Homeo	Mus musculus	retina and anterior neural fold homeobox	Berger et al., Cell 2008
Rdr1	Q08904	Zn2Cys6	Saccharomyces cerevisiae	Transcriptional repressor involved in the control of multidrug resistance; negatively regulates expression of the PDR5 gene; member of the Gal4p family of zinc cluster proteins	Zhu et al., GR 2009
Rds1	P25611	Zn2Cys6	Saccharomyces cerevisiae	Zinc cluster protein involved in conferring resistance to cycloheximide	Zhu et al., GR 2009
Rds2	P19541	Zn2Cys6	Saccharomyces cerevisiae	Zinc cluster protein involved in conferring resistance to ketoconazole	Zhu et al., GR 2009
REF-1	Q22069	bHLH	Caenorhabditis elegans	REgulator of Fusion: ref-1 encodes a protein with two basic helix-loop-helix (bHLH) domains that is distantly related to the hairy/Enhancer of split subfamily of bHLH transcription factors; REF-1 is required in hermaphrodites during early larval development for regulating the pattern of posterior Pn.p hypodermal cell fusions, primarily through regulation of MAB-5 homeodomain protein activity; REF-1 is also required for head morphogenesis and specification of the V6 lateral seam cell fate; in males, ref-1 is a target of MAB-3 transcriptional repression which in turn, promotes expression of LIN-32, a proneural bHLH transcription factor.	Grove et al., Cell 2009
Rfx3	P48381	RFX	Mus musculus	regulatory factor X, 3 (influences HLA class II expression)	Badis et al., Science 2009
Rfx4	Q8HWA6	RFX	Mus musculus	regulatory factor X, 4 (influences HLA class II expression)	Badis et al., Science 2009
Rfxdc2	Q8CB07	RFX	Mus musculus	regulatory factor X domain containing 2 homolog (human): AK138890	Badis et al., Science 2009
Rgt1	P32862	Zn2Cys6	Saccharomyces cerevisiae	Glucose-responsive transcription factor that regulates expression of several glucose transporter (HXT) genes in response to glucose; binds to promoters and acts both as a transcriptional activator ...	Zhu et al., GR 2009
Rhox11	Q810N8	Homeo	Mus musculus	reproductive homeobox 11	Berger et al., Cell 2008
Rhox6	Q8BPD6	Homeo	Mus musculus	reproductive homeobox 6	Berger et al., Cell 2008
Rph1	P39956	Zf_C2H2	Saccharomyces cerevisiae	Transcriptional repressor of PHR1, which is a photolyase induced by DNA damage; binds to AG(4) (C(4)T) sequence upstream of PHR1; Rph1p phosphorylation during DNA damage is under control of the MEC...	Zhu et al., GR 2009
Rpn4	Q03465	Zf_C2H2	Saccharomyces cerevisiae	Transcription factor that stimulates expression of proteasome genes; Rpn4p levels are in turn regulated by the 26S proteasome in a negative feedback control mechanism; RPN4 is transcriptionally reg...	Zhu et al., GR 2009
Rsc3	Q06639	Zn2Cys6	Saccharomyces cerevisiae	One of 15 subunits of the 'Remodel the Structure of Chromatin' (RSC) complex; essential gene required for regulation of ribosomal protein genes and the cell wall/stress response; highly similar to	Zhu et al., GR 2009
Rsc30	P38781	Zn2Cys6	Saccharomyces cerevisiae	One of 15 subunits of the 'Remodel the Structure of Chromatin' (RSC) complex; non-essential gene required for regulation of ribosomal protein genes and the cell wall/stress response; highly similar...	Zhu et al., GR 2009
Rtg3	P38165	HLH	Saccharomyces cerevisiae	Basic helix-loop-helix-leucine zipper (bHLH/Zip) transcription factor that forms a complex with another bHLH/Zip protein, Rtg1p, to activate the retrograde (RTG) and TOR pathways	Zhu et al., GR 2009
Rxra	P28700	ZnF_C4	Mus musculus	retinoid X receptor alpha: retinoid X receptor alpha (Rxra), mRNA	Badis et al., Science 2009
Sfl1	P20134	HSF_DNA-bind	Saccharomyces cerevisiae	Transcription repressor involved in regulation of flocculation-related genes, inhibits transcription by recruiting general corepressor Cyc8p-Tup1p to different promoters; negatively regulated by cA...	Zhu et al., GR 2009
Sfp1	P32432	Zf_C2H2	Saccharomyces cerevisiae	Transcription factor that controls expression of many ribosome biogenesis genes in response to nutrients and stress, regulates G2/M transitions during mitotic cell cycle and DNA-damage response, in...	Zhu et al., GR 2009
Sfpi1	P17433	ETS	Mus musculus	SFFV proviral integration 1: Mus musculus SFFV proviral integration 1 (Sfpi1), mRNA	Badis et al., Science 2009
Shox2	P70390	Homeo	Mus musculus	short stature homeobox 2	Berger et al., Cell 2008
Sip4	P46954	Zn2Cys6	Saccharomyces cerevisiae	C6 zinc cluster transcriptional activator that binds to the carbon source-responsive element (CSRE) of gluconeogenic genes; involved in the positive regulation of gluconeogenesis; regulated by Snf1...	Zhu et al., GR 2009
Six1	Q62231	Homeo	Mus musculus	sine oculis-related homeobox 1 homolog (Drosophila)	Berger et al., Cell 2008
Six2	Q62232	Homeo	Mus musculus	sine oculis-related homeobox 2 homolog (Drosophila)	Berger et al., Cell 2008
Six3	Q62233	Homeo	Mus musculus	sine oculis-related homeobox 3 homolog (Drosophila): Mus musculus sine oculis-related homeobox 3 homolog (Drosophila) (Six3), mRNA.	Berger et al., Cell 2008
Six4	Q61321	Homeo	Mus musculus	sine oculis-related homeobox 4 homolog (Drosophila)	Berger et al., Cell 2008
Six6	Q9QZ28	Homeo	Mus musculus	sine oculis-related homeobox 6 homolog (Drosophila)	Berger et al., Cell 2008
Six6	Q9QZ28	Homeo	Mus musculus	sine oculis-related homeobox 6 homolog (Drosophila)	Badis et al., Science 2009
Skn7	P38889	HSF_DNA-bind	Saccharomyces cerevisiae	Nuclear response regulator and transcription factor, part of a branched two-component signaling system; required for optimal induction of heat-shock genes in response to oxidative stress;	Zhu et al., GR 2009
Smad3	Q8BUN5	DWA	Mus musculus	MAD homolog 3 (Drosophila)	Badis et al., Science 2009
Smp1	P38128	MADS	Saccharomyces cerevisiae	Putative transcription factor involved in regulating the response to osmotic stress; member of the MADS-box family of transcription factors	Zhu et al., GR 2009
Sox1	P53783	HMG	Mus musculus	SRY-box containing gene 1	Badis et al., Science 2009
Sox11	Q04889	HMG	Mus musculus	SRY-box containing gene 11	Badis et al., Science 2009
Sox12	Q04890	HMG	Mus musculus	SRY-box containing gene 12	Badis et al., Science 2009
Sox13	Q04891	HMG	Mus musculus	SRY-box containing gene 13: nuclear factor of kappa light polypeptide gene enhancer in B-cells 2, p49/p100, mRNA (cDNA clone MGC:35934 IMAGE:3672913), complete cds	Badis et al., Science 2009
Sox14	Q04892	HMG	Mus musculus	SRY-box containing gene 14: Mus musculus SRY-box containing gene 14, mRNA	Badis et al., Science 2009
Sox15	P43267	HMG	Mus musculus	SRY-box containing gene 15	Badis et al., Science 2009
Sox17	Q61473	HMG	Mus musculus	SRY-box containing gene 17	Badis et al., Science 2009
Sox18	P43680	HMG	Mus musculus	SRY-box containing gene 18	Badis et al., Science 2009
Sox21	Q811W0	HMG	Mus musculus	SRY-box containing gene 21	Badis et al., Science 2009
Sox30	Q8CGW4	HMG	Mus musculus	SRY-box containing gene 30: Mus musculus SRY-box containing gene 30 (Sox30)	Badis et al., Science 2009
Sox4	Q06945	HMG_box	Homo sapiens	SRY (sex determining region Y)-box 4 : This intronless gene encodes a member of the SOX (SRY-related HMG-box) family of transcription factors involved in the regulation of embryonic development and in the determination of the cell fate. The encoded protein may act as a transcriptional regulator after forming a protein complex with other proteins, such as syndecan binding protein (syntenin). The protein may function	Scharer et al., CR 2009
Sox4	Q06831	HMG	Mus musculus	SRY-box containing gene 4: Mus musculus BAC Clone 262c6 RPCI-23, complete sequence	Badis et al., Science 2009
Sox5	P35710	HMG	Mus musculus	SRY-box containing gene 5	Badis et al., Science 2009
Sox7	P40646	HMG	Mus musculus	SRY-box containing gene 7	Badis et al., Science 2009
Sox8	Q04886	HMG	Mus musculus	SRY-box containing gene 8: SRY-box containing gene 8, mRNA (cDNA clone MGC:78314 IMAGE:6306276), complete cds	Badis et al., Science 2009
Sp100	O35892	SAND	Mus musculus	nuclear antigen Sp100: PREDICTED: Mus musculus nuclear antigen Sp100 (Sp100)	Badis et al., Science 2009
Sp4	Q62445	ZnF_C2H2	Mus musculus	trans-acting transcription factor 4: Mus musculus similar to trans-acting transcription factor 4 (LOC211769), mRNA	Badis et al., Science 2009
Spdef	Q9WTP3	ETS	Mus musculus	SAM pointed domain containing ets transcription factor: Mus musculus prostate specific ets transcription factor (Pse-pending), mRNA	Badis et al., Science 2009
Spt15	P13393	TBP	Saccharomyces cerevisiae	TATA-binding protein, general transcription factor that interacts with other factors to form the preinitiation complex at promoters, essential for viability	Zhu et al., GR 2009
Srd1	P09007	Zf_GATA	Saccharomyces cerevisiae	Protein involved in the processing of pre-rRNA to mature rRNA; contains a C2/C2 zinc finger motif; srd1 mutation suppresses defects caused by the rrp1-1 mutation	Zhu et al., GR 2009
Srf	Q9JM73	MADS	Mus musculus	serum response factor	Badis et al., Science 2009
Sry	Q05738	HMG	Mus musculus	sex determining region of Chr Y	Badis et al., Science 2009
Stb3	Q12427		Saccharomyces cerevisiae	Protein that binds Sin3p in a two-hybrid assay	Zhu et al., GR 2009
Stp2	P38704	Zf_C2H2	Saccharomyces cerevisiae	Transcription factor, activated by proteolytic processing in response to signals from the SPS sensor system for external amino acids; activates transcription of amino acid permease genes	Zhu et al., GR 2009
Stp4		Zf_C2H2	Saccharomyces cerevisiae	Protein containing a Kruppel-type zinc-finger domain; has similarity to Stp1p, Stp2p, and Stp3p	Zhu et al., GR 2009
Sum1	P46676	AT_hook	Saccharomyces cerevisiae	Transcriptional repressor required for mitotic repression of middle sporulation-specific genes; involved in telomere maintenance, regulated by the pachytene checkpoint	Zhu et al., GR 2009
Sut2	Q12286	Zn2Cys6	Saccharomyces cerevisiae	Putative transcription factor; multicopy suppressor of mutations that cause low activity of the cAMP/protein kinase A pathway; highly similar to Sut1p	Zhu et al., GR 2009
Tbf1	Q02457	Myb	Saccharomyces cerevisiae	Telobox-containing general regulatory factor; binds to TTAGGG repeats within subtelomeric anti-silencing regions (STARs) and possibly throughout the genome and mediates their insulating capacity by...	Zhu et al., GR 2009
Tbp	P29037	TBP	Mus musculus	TATA box binding protein	Badis et al., Science 2009
Tbs1	P38114	Zn2Cys6	Saccharomyces cerevisiae	Probable Zn-finger protein	Zhu et al., GR 2009
Tcf1	Q66JY7	Homeo	Mus musculus	transcription factor 1: Mus musculus transcription factor 1 (Tcf1), mRNA.	Berger et al., Cell 2008
Tcf1	Q66JY7	Homeo	Mus musculus	transcription factor 1: Mus musculus transcription factor 1 (Tcf1), mRNA.	Badis et al., Science 2009
Tcf2	P27889	Homeo	Mus musculus	transcription factor 2: TCF2 gene, VIRTUAL TRANSCRIPT, partial sequence, genomic survey sequence	Berger et al., Cell 2008
Tcf3	Q9Z1J1	HMG	Mus musculus	transcription factor 3	Badis et al., Science 2009
Tcf7	Q00417	HMG	Mus musculus	Transcription factor 7, T-cell specific	Badis et al., Science 2009
Tcf7l2	Q924A0	HMG	Mus musculus	transcription factor 7-like 2, T-cell specific, HMG-box	Badis et al., Science 2009
Tcfap2a	P34056	AP-2	Mus musculus	transcription factor AP-2, alpha: Mus musculus transcription factor AP-2, alpha, mRNA	Badis et al., Science 2009
Tcfap2b	Q61313	AP-2	Mus musculus	transcription factor AP-2 beta	Badis et al., Science 2009
Tcfap2c	Q61312	AP-2	Mus musculus	transcription factor AP-2, gamma: Mus musculus transcription factor AP-2, gamma, mRNA (cDNA clone MGC:5992 IMAGE:3592762), complete cds	Badis et al., Science 2009
Tcfap2e	Q6VUP9	AP-2	Mus musculus	transcription factor AP-2, epsilon	Badis et al., Science 2009
Tcfe2a	P15806	HLH	Mus musculus	transcription factor E2a	Badis et al., Science 2009
Tea1	P47988	Zn2Cys6	Saccharomyces cerevisiae	Ty1 enhancer activator required for full levels of Ty enhancer-mediated transcription; C6 zinc cluster DNA-binding protein	Zhu et al., GR 2009
Tec1	P18412	TEA	Saccharomyces cerevisiae	Transcription factor required for full Ty1 epxression, Ty1-mediated gene activation, and haploid invasive and diploid pseudohyphal growth; TEA/ATTS DNA-binding domain family member	Zhu et al., GR 2009
Tgif1		Homeo	Mus musculus	TGFB-induced factor 2	Berger et al., Cell 2008
Tgif2	Q8C0Y1	Homeo	Mus musculus	TGFB-induced factor 2	Berger et al., Cell 2008
Titf1	P50220	Homeo	Mus musculus	thyroid transcription factor 1	Berger et al., Cell 2008
Tlx2	Q61663	Homeo	Mus musculus	T-cell leukemia, homeobox 2	Berger et al., Cell 2008
Tye7	P33122	HLH	Saccharomyces cerevisiae	Serine-rich protein that contains a basic-helix-loop-helix (bHLH) DNA binding motif; binds E-boxes of glycolytic genes and contributes to their activation; may function as a transcriptional activator	Zhu et al., GR 2009
Ume6	P39001	Zn2Cys6	Saccharomyces cerevisiae	Key transcriptional regulator of early meiotic genes, binds URS1 upstream regulatory sequence, couples metabolic responses to nutritional cues with initiation and progression of meiosis, forms comp...	Zhu et al., GR 2009
Uncx4.1	Q78DU3	Homeo	Mus musculus	Unc4.1 homeobox (C. elegans)	Berger et al., Cell 2008
Usv1		Zf_C2H2	Saccharomyces cerevisiae	Putative transcription factor containing a C2H2 zinc finger; mutation affects transcriptional regulation of genes involved in protein folding, ATP binding, and cell wall biosynthesis	Zhu et al., GR 2009
Vax1	Q2NKI2	Homeo	Mus musculus	ventral anterior homeobox containing gene 1	Berger et al., Cell 2008
Vax2	Q9WTP9	Homeo	Mus musculus	ventral anterior homeobox containing gene 2	Berger et al., Cell 2008
Vsx1	Q91V10	Homeo	Mus musculus	visual system homeobox 1 homolog (zebrafish)	Berger et al., Cell 2008
Xbp1	P40489	HTH APSES-type	Saccharomyces cerevisiae	Transcriptional repressor that binds to promoter sequences of the cyclin genes, CYS3, and SMF2; expression is induced by stress or starvation during mitosis, and late in meiosis; member of the Swi4...	Zhu et al., GR 2009
Yap1	P19880	bZIP	Saccharomyces cerevisiae	Basic leucine zipper (bZIP) transcription factor required for oxidative stress tolerance; mediates pleiotropic drug and metal resistance; localized to the nucleus in response to the presence of oxi...	Zhu et al., GR 2009
Yap6	Q03935	bZIP	Saccharomyces cerevisiae	Putative basic leucine zipper (bZIP) transcription factor; overexpression increases sodium and lithium tolerance	Zhu et al., GR 2009
Ybr239c	P38140	Zn2Cys6	Saccharomyces cerevisiae	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; YBR239C is not an essential gene	Zhu et al., GR 2009
Ydr520c		Zn2Cys6	Saccharomyces cerevisiae	Putative transcription factor; contains the (Zn(II)2Cys6 motif; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; null mutant is viable and sensitive to caffeine	Zhu et al., GR 2009
Yer130c	P39959	Zf_C2H2	Saccharomyces cerevisiae	Hypothetical protein	Zhu et al., GR 2009
Ygr067c	P53243	Zf_C2H2	Saccharomyces cerevisiae	Putative protein of unknown function; contains a zinc finger motif similar to that of Adr1p	Zhu et al., GR 2009
Ykl222c	P35995	Zn2Cys6	Saccharomyces cerevisiae	Putative protein of unknown function; similar to transcriptional regulators from the zinc cluster (binuclear cluster) protein family; null mutant is sensitive to caffeine	Zhu et al., GR 2009
Yll054c		Zn2Cys6	Saccharomyces cerevisiae	Putative protein of unknown function with similarity to Pip2p, an oleate-specific transcriptional activator of peroxisome proliferation; YLL054C is not an essential gene	Zhu et al., GR 2009
Yml081w	Q04545	Zf_C2H2	Saccharomyces cerevisiae	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the nucleus; YML081w is not an essential gene	Zhu et al., GR 2009
Ynr063w	P53749	Zn2Cys6	Saccharomyces cerevisiae	Putative zinc-cluster protein of unknown function	Zhu et al., GR 2009
Yox1	P34161	Homeo	Saccharomyces cerevisiae	Homeodomain-containing transcriptional repressor, binds to Mcm1p and to early cell cycle boxes (ECBs) in the promoters of cell cycle-regulated genes expressed in M/G1 phase; expression is cell cycl...	Zhu et al., GR 2009
Ypr013c		Zf_C2H2	Saccharomyces cerevisiae	Putative zinc finger protein; YPR013C is not an essential gene	Zhu et al., GR 2009
Ypr015c		Zf_C2H2	Saccharomyces cerevisiae	Hypothetical protein	Zhu et al., GR 2009
Ypr196w		Zn2Cys6	Saccharomyces cerevisiae	nuclear protein (putative)	Zhu et al., GR 2009
Yrm1		Zn2Cys6	Saccharomyces cerevisiae	Zn2-Cys6 zinc-finger transcription factor that activates genes involved in multidrug resistance; paralog of Yrr1p, acting on an overlapping set of target genes	Zhu et al., GR 2009
Yrr1		Zn2Cys6	Saccharomyces cerevisiae	Zn2-Cys6 zinc-finger transcription factor that activates genes involved in multidrug resistance; paralog of Yrm1p, acting on an overlapping set of target genes	Zhu et al., GR 2009
Zbtb12	Q6P6L4	ZnF_C2H2	Mus musculus	zinc finger and BTB domain containing 12: Mus musculus zinc finger and BTB domain containing 12	Badis et al., Science 2009
Zbtb3	Q91X45	ZnF_C2H2	Mus musculus	zinc finger and BTB domain containing 3: Mus musculus RIKEN cDNA 4930563M09 gene (4930563M09Rik), mRNA	Badis et al., Science 2009
Zbtb7b	Q64321	ZnF_C2H2	Mus musculus	Vzinc finger and BTB domain containing 7B: Mus musculus hypothetical gene supported by NM_009565	Badis et al., Science 2009
Zfp105	Q3UHV1	ZnF_C2H2	Mus musculus	zinc finger protein 105: Mus musculus zinc finger protein 105 (Zfp105)	Badis et al., Science 2009
Zfp128	Q52KP6	ZnF_C2H2	Mus musculus	zinc finger protein 128: Zinc finger protein 128 [Mus musculus]	Badis et al., Science 2009
Zfp161	Q08376	ZnF_C2H2	Mus musculus	zinc finger protein 161: Mus musculus zinc finger protein 161	Badis et al., Science 2009
Zfp187	Q5RJ54	ZnF_C2H2	Mus musculus	zinc finger protein 187: Mus musculus zinc finger protein 187	Badis et al., Science 2009
Zfp281	Q99LI5	ZnF_C2H2	Mus musculus	Zinc finger protein 281: Mus musculus zinc finger protein 281, mRNA	Badis et al., Science 2009
Zfp410	Q8BKX7	ZnF_C2H2	Mus musculus	zinc finger protein 410: Mus musculus HCM3688 gene, VIRTUAL TRANSCRIPT, partial sequence, genomic survey sequence	Badis et al., Science 2009
Zfp691	Q3TDE8	ZnF_C2H2	Mus musculus	Zinc finger protein 691: Mus musculus similar to hypothetical protein LOC51058 (LOC242652), mRNA	Badis et al., Science 2009
Zfp740	Q6NZQ6	ZnF_C2H2	Mus musculus	Zinc finger protein 740	Badis et al., Science 2009
Zic1	P46684	ZnF_C2H2	Mus musculus	Zinc finger protein of the cerebellum 1: Mus musculus similar to zic protein member 1 (Zic1), mRNA	Badis et al., Science 2009
Zic2	Q62520	ZnF_C2H2	Mus musculus	Zic finger protein of the cerebellum 2: Mus musculus Zic finger protein of the cerebellum 2 (Zic2)	Badis et al., Science 2009
Zic3	Q62521	ZnF_C2H2	Mus musculus	zinc finger protein of the cerebellum 3: Mus musculus zinc finger protein of the cerebellum 3, mRNA (cDNA clone IMAGE:30112694), partial cds	Badis et al., Science 2009
Zif268	P08046	ZnF_C2H2	Mus musculus	Transcription factor Zif268	Berger et al., Nat Biotech 2006
Zscan4		ZnF_C2H2	Mus musculus	zinc finger and SCAN domain containing 4: Mus musculus BAC clone RP23-35L23 from chromosome 7, complete sequence.	Badis et al., Science 2009

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