SOX1A_DANRE
ID SOX1A_DANRE Reviewed; 336 AA.
AC Q6DGL6; B0UY96; Q4V997;
DT 30-MAY-2006, integrated into UniProtKB/Swiss-Prot.
DT 30-MAY-2006, sequence version 2.
DT 03-AUG-2022, entry version 122.
DE RecName: Full=Transcription factor Sox-1a;
GN Name=sox1a {ECO:0000312|EMBL:AAH76326.1};
GN ORFNames=si:dkey-58d5.1, zgc:92865;
OS Danio rerio (Zebrafish) (Brachydanio rerio).
OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes;
OC Danionidae; Danioninae; Danio.
OX NCBI_TaxID=7955;
RN [1] {ECO:0000305, ECO:0000312|EMBL:BAE48581.1}
RP NUCLEOTIDE SEQUENCE [MRNA], FUNCTION, TISSUE SPECIFICITY, AND DEVELOPMENTAL
RP STAGE.
RC TISSUE=Embryo {ECO:0000269|PubMed:16408288};
RX PubMed=16408288; DOI=10.1002/dvdy.20678;
RA Okuda Y., Yoda H., Uchikawa M., Furutani-Seiki M., Takeda H., Kondoh H.,
RA Kamachi Y.;
RT "Comparative genomic and expression analysis of group B1 sox genes in
RT zebrafish indicates their diversification during vertebrate evolution.";
RL Dev. Dyn. 235:811-825(2006).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=Tuebingen;
RX PubMed=23594743; DOI=10.1038/nature12111;
RA Howe K., Clark M.D., Torroja C.F., Torrance J., Berthelot C., Muffato M.,
RA Collins J.E., Humphray S., McLaren K., Matthews L., McLaren S., Sealy I.,
RA Caccamo M., Churcher C., Scott C., Barrett J.C., Koch R., Rauch G.J.,
RA White S., Chow W., Kilian B., Quintais L.T., Guerra-Assuncao J.A., Zhou Y.,
RA Gu Y., Yen J., Vogel J.H., Eyre T., Redmond S., Banerjee R., Chi J., Fu B.,
RA Langley E., Maguire S.F., Laird G.K., Lloyd D., Kenyon E., Donaldson S.,
RA Sehra H., Almeida-King J., Loveland J., Trevanion S., Jones M., Quail M.,
RA Willey D., Hunt A., Burton J., Sims S., McLay K., Plumb B., Davis J.,
RA Clee C., Oliver K., Clark R., Riddle C., Elliot D., Threadgold G.,
RA Harden G., Ware D., Begum S., Mortimore B., Kerry G., Heath P.,
RA Phillimore B., Tracey A., Corby N., Dunn M., Johnson C., Wood J., Clark S.,
RA Pelan S., Griffiths G., Smith M., Glithero R., Howden P., Barker N.,
RA Lloyd C., Stevens C., Harley J., Holt K., Panagiotidis G., Lovell J.,
RA Beasley H., Henderson C., Gordon D., Auger K., Wright D., Collins J.,
RA Raisen C., Dyer L., Leung K., Robertson L., Ambridge K., Leongamornlert D.,
RA McGuire S., Gilderthorp R., Griffiths C., Manthravadi D., Nichol S.,
RA Barker G., Whitehead S., Kay M., Brown J., Murnane C., Gray E.,
RA Humphries M., Sycamore N., Barker D., Saunders D., Wallis J., Babbage A.,
RA Hammond S., Mashreghi-Mohammadi M., Barr L., Martin S., Wray P.,
RA Ellington A., Matthews N., Ellwood M., Woodmansey R., Clark G., Cooper J.,
RA Tromans A., Grafham D., Skuce C., Pandian R., Andrews R., Harrison E.,
RA Kimberley A., Garnett J., Fosker N., Hall R., Garner P., Kelly D., Bird C.,
RA Palmer S., Gehring I., Berger A., Dooley C.M., Ersan-Urun Z., Eser C.,
RA Geiger H., Geisler M., Karotki L., Kirn A., Konantz J., Konantz M.,
RA Oberlander M., Rudolph-Geiger S., Teucke M., Lanz C., Raddatz G.,
RA Osoegawa K., Zhu B., Rapp A., Widaa S., Langford C., Yang F.,
RA Schuster S.C., Carter N.P., Harrow J., Ning Z., Herrero J., Searle S.M.,
RA Enright A., Geisler R., Plasterk R.H., Lee C., Westerfield M.,
RA de Jong P.J., Zon L.I., Postlethwait J.H., Nusslein-Volhard C.,
RA Hubbard T.J., Roest Crollius H., Rogers J., Stemple D.L.;
RT "The zebrafish reference genome sequence and its relationship to the human
RT genome.";
RL Nature 496:498-503(2013).
RN [3] {ECO:0000312|EMBL:AAH76326.1}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC STRAIN=AB {ECO:0000312|EMBL:AAH96992.1};
RC TISSUE=Brain {ECO:0000312|EMBL:AAH76326.1};
RG NIH - Zebrafish Gene Collection (ZGC) project;
RL Submitted (JUN-2005) to the EMBL/GenBank/DDBJ databases.
CC -!- FUNCTION: Transcriptional activator. {ECO:0000269|PubMed:16408288}.
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000255|PROSITE-ProRule:PRU00267}.
CC -!- TISSUE SPECIFICITY: First detected at the tail bud stage in the
CC forebrain. At the 3-somite stage, also expressed weakly in the
CC hindbrain. At the 12-somite stage, strongly expressed in the forebrain
CC and weakly expressed throughout the central nervous system. At the 21-
CC somite stage, also expressed in the lens.
CC {ECO:0000269|PubMed:16408288}.
CC -!- DEVELOPMENTAL STAGE: Expressed zygotically. First detected at the tail
CC bud stage and continues to be expressed for at least the first 48 hours
CC of development. {ECO:0000269|PubMed:16408288}.
CC -!- DOMAIN: The 9aaTAD motif is a transactivation domain present in a large
CC number of yeast and animal transcription factors.
CC {ECO:0000250|UniProtKB:P41225}.
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DR EMBL; AB242327; BAE48581.1; -; mRNA.
DR EMBL; CR392332; CAQ15644.1; -; Genomic_DNA.
DR EMBL; BC076326; AAH76326.1; -; mRNA.
DR EMBL; BC096992; AAH96992.1; -; mRNA.
DR RefSeq; NP_001002483.1; NM_001002483.1.
DR AlphaFoldDB; Q6DGL6; -.
DR SMR; Q6DGL6; -.
DR STRING; 7955.ENSDARP00000092797; -.
DR PaxDb; Q6DGL6; -.
DR PRIDE; Q6DGL6; -.
DR Ensembl; ENSDART00000102021; ENSDARP00000092797; ENSDARG00000069866.
DR Ensembl; ENSDART00000184939; ENSDARP00000148090; ENSDARG00000110682.
DR Ensembl; ENSDART00000190624; ENSDARP00000156280; ENSDARG00000114571.
DR GeneID; 436756; -.
DR KEGG; dre:436756; -.
DR CTD; 436756; -.
DR ZFIN; ZDB-GENE-040718-186; sox1a.
DR eggNOG; KOG0527; Eukaryota.
DR GeneTree; ENSGT00940000162479; -.
DR HOGENOM; CLU_021123_0_0_1; -.
DR InParanoid; Q6DGL6; -.
DR OMA; GPKANQD; -.
DR OrthoDB; 1161594at2759; -.
DR PhylomeDB; Q6DGL6; -.
DR TreeFam; TF351735; -.
DR PRO; PR:Q6DGL6; -.
DR Proteomes; UP000000437; Genome assembly.
DR Proteomes; UP000814640; Chromosome 9.
DR Bgee; ENSDARG00000069866; Expressed in brain and 8 other tissues.
DR GO; GO:0005634; C:nucleus; IEA:UniProtKB-SubCell.
DR GO; GO:0005667; C:transcription regulator complex; IC:ZFIN.
DR GO; GO:0000981; F:DNA-binding transcription factor activity, RNA polymerase II-specific; IBA:GO_Central.
DR GO; GO:0000978; F:RNA polymerase II cis-regulatory region sequence-specific DNA binding; IBA:GO_Central.
DR GO; GO:0009653; P:anatomical structure morphogenesis; IBA:GO_Central.
DR GO; GO:0030154; P:cell differentiation; IBA:GO_Central.
DR GO; GO:0007399; P:nervous system development; IEA:InterPro.
DR GO; GO:0051091; P:positive regulation of DNA-binding transcription factor activity; IDA:ZFIN.
DR GO; GO:0045944; P:positive regulation of transcription by RNA polymerase II; IBA:GO_Central.
DR GO; GO:0006355; P:regulation of transcription, DNA-templated; IBA:GO_Central.
DR Gene3D; 1.10.30.10; -; 1.
DR InterPro; IPR009071; HMG_box_dom.
DR InterPro; IPR036910; HMG_box_dom_sf.
DR InterPro; IPR031268; SOX-1.
DR InterPro; IPR022097; SOX_fam.
DR PANTHER; PTHR10270:SF40; PTHR10270:SF40; 1.
DR Pfam; PF00505; HMG_box; 1.
DR Pfam; PF12336; SOXp; 1.
DR SMART; SM00398; HMG; 1.
DR SUPFAM; SSF47095; SSF47095; 1.
DR PROSITE; PS50118; HMG_BOX_2; 1.
PE 2: Evidence at transcript level;
KW Activator; Developmental protein; DNA-binding; Nucleus; Reference proteome;
KW Transcription; Transcription regulation.
FT CHAIN 1..336
FT /note="Transcription factor Sox-1a"
FT /id="PRO_0000238909"
FT DNA_BIND 37..105
FT /note="HMG box"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00267"
FT REGION 1..39
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 193..216
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT MOTIF 293..301
FT /note="9aaTAD"
FT /evidence="ECO:0000250|UniProtKB:P41225"
FT COMPBIAS 10..35
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 199..213
FT /note="Basic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT CONFLICT 154
FT /note="G -> S (in Ref. 3; AAH76326)"
FT /evidence="ECO:0000305"
FT CONFLICT 259
FT /note="S -> P (in Ref. 3; AAH76326)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 336 AA; 36223 MW; 88E3820EA178D4E9 CRC64;
MYSMMMETDL HSPGPQTNTN PGQTGPNSGS KANQDRVKRP MNAFMVWSRG QRRKMAQENP
KMHNSEISKR LGAEWKVMSE AEKRPFIDEA KRLRAMHMKE HPDYKYRPRR KTKTLLKKDK
YSLAGGLLGG AGGGVGMSPA GVGQRLESPG GHGGSASAGY AHMNGWANGT YSGQVAAAAA
AAAMMQEAQL AYSQHPGSGS HHHHAHHHHP HNPQPMHRYD MTALQYSPIS NSQSYMSASP
SGYGGISYTQ HQNSSVATSA AIGTLSSLVK SEPNISPPVT THSRGPCPGD LREMISMYLP
TGESGDPSVQ SRLHALPQHY QSTTAGVNGT VPLTHI
