ID   FXC1A_DANRE             Reviewed;         476 AA.
AC   Q9DE25;
DT   03-OCT-2012, integrated into UniProtKB/Swiss-Prot.
DT   01-MAR-2001, sequence version 1.
DT   27-MAR-2024, entry version 158.
DE   RecName: Full=Forkhead box C1-A;
GN   Name=foxc1a; Synonyms=foxc1.1;
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]
RP   NUCLEOTIDE SEQUENCE [GENOMIC DNA], AND DEVELOPMENTAL STAGE.
RX   PubMed=11165495; DOI=10.1016/s0925-4773(00)00534-7;
RA   Topczewska J.M., Topczewski J., Solnica-Krezel L., Hogan B.L.;
RT   "Sequence and expression of zebrafish foxc1a and foxc1b, encoding conserved
RT   forkhead/winged helix transcription factors.";
RL   Mech. Dev. 100:343-347(2001).
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]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC   TISSUE=Embryo;
RG   NIH - Zebrafish Gene Collection (ZGC) project;
RL   Submitted (JUN-2003) to the EMBL/GenBank/DDBJ databases.
CC   -!- FUNCTION: DNA-binding transcriptional factor that plays a role in a
CC       broad range of cellular and developmental processes such as eye, bones,
CC       cardiovascular, kidney and skin development. Acts either as a
CC       transcriptional activator or repressor. Binds to the consensus binding
CC       site 5'-[G/C][A/T]AAA[T/C]AA[A/C]-3' in promoter of target genes. Upon
CC       DNA-binding, promotes DNA bending. Required for cell viability and
CC       resistance to oxidative stress in the eye. Promotes cell growth
CC       inhibition by stopping the cell cycle in the G1 phase through TGFB1-
CC       mediated signals. Involved in epithelial-mesenchymal transition (EMT)
CC       induction by increasing cell proliferation, migration and invasion.
CC       Involved in chemokine-induced endothelial cell migration. Plays a role
CC       in epidermal keratinocyte terminal differentiation. Essential
CC       developmental transcriptional factor required for mesoderm-derived
CC       tissues formation, such as the somites, skin, bone and cartilage. Plays
CC       a role in the development and maintenance of mesenchymal niches for
CC       haematopoietic stem and progenitor cells (HSPC). Plays a role in
CC       corneal transparency by preventing both blood vessel and lymphatic
CC       vessel growth during embryonic development in a VEGF-dependent manner.
CC       {ECO:0000250|UniProtKB:Q12948, ECO:0000250|UniProtKB:Q61572}.
CC   -!- SUBUNIT: Monomer. {ECO:0000305}.
CC   -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000250|UniProtKB:Q61572}.
CC   -!- DEVELOPMENTAL STAGE: First detected at the shield stage of gastrulation
CC       in the involuting mesendoderm with levels being highest in the paraxial
CC       mesoderm and decline laterally to become undetectable in the ventral
CC       mesoderm. Expression spreads in the hypoblast towards the animal pole
CC       and converges dorsally. At the tail bud stage (9.5 hpf), transcripts
CC       are seen in adaxial cells flanking the future notochord and in the
CC       presomitic mesoderm (PSM). During early somitogenesis, expression also
CC       extends into the future head, in two stripes continuous with the
CC       adaxial cells. Expression continues around the developing eye,
CC       presomitic mesoderm (PSM), trunk adaxial cells and somites. In late
CC       somatogenesis, expression in the presumptive pronephric primodia
CC       lateral to the second and third somite. In the early pharyngula stage,
CC       expressed in the perioptic mesoderm. Expression continues in the PSM
CC       and adaxial cells in the tail. {ECO:0000269|PubMed:11165495}.
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DR   EMBL; CU929125; -; NOT_ANNOTATED_CDS; Genomic_DNA.
DR   EMBL; AF219949; AAG44241.1; -; Genomic_DNA.
DR   EMBL; BC053129; AAH53129.1; -; mRNA.
DR   RefSeq; NP_571803.1; NM_131728.3.
DR   AlphaFoldDB; Q9DE25; -.
DR   SMR; Q9DE25; -.
DR   STRING; 7955.ENSDARP00000105372; -.
DR   PaxDb; 7955-ENSDARP00000105372; -.
DR   GeneID; 100148408; -.
DR   KEGG; dre:100148408; -.
DR   AGR; ZFIN:ZDB-GENE-010302-1; -.
DR   CTD; 100148408; -.
DR   ZFIN; ZDB-GENE-010302-1; foxc1a.
DR   eggNOG; KOG2294; Eukaryota.
DR   HOGENOM; CLU_035722_3_1_1; -.
DR   InParanoid; Q9DE25; -.
DR   OMA; TSWYLNQ; -.
DR   OrthoDB; 5385885at2759; -.
DR   PhylomeDB; Q9DE25; -.
DR   TreeFam; TF316127; -.
DR   PRO; PR:Q9DE25; -.
DR   Proteomes; UP000000437; Chromosome 2.
DR   Bgee; ENSDARG00000091481; Expressed in presomitic mesoderm and 58 other cell types or tissues.
DR   GO; GO:0005634; C:nucleus; IEA:UniProtKB-SubCell.
DR   GO; GO:0003682; F:chromatin binding; IDA: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:0030325; P:adrenal gland development; IGI:ZFIN.
DR   GO; GO:0009653; P:anatomical structure morphogenesis; IBA:GO_Central.
DR   GO; GO:0001568; P:blood vessel development; IGI:ZFIN.
DR   GO; GO:0043010; P:camera-type eye development; IGI:ZFIN.
DR   GO; GO:0051216; P:cartilage development; IMP:ZFIN.
DR   GO; GO:0030154; P:cell differentiation; IBA:GO_Central.
DR   GO; GO:0061300; P:cerebellum vasculature development; IGI:ZFIN.
DR   GO; GO:0061386; P:closure of optic fissure; IMP:ZFIN.
DR   GO; GO:0061371; P:determination of heart left/right asymmetry; IMP:ZFIN.
DR   GO; GO:0007368; P:determination of left/right symmetry; IMP:ZFIN.
DR   GO; GO:0071910; P:determination of liver left/right asymmetry; IGI:ZFIN.
DR   GO; GO:0035469; P:determination of pancreatic left/right asymmetry; IGI:ZFIN.
DR   GO; GO:0060059; P:embryonic retina morphogenesis in camera-type eye; IGI:ZFIN.
DR   GO; GO:0007507; P:heart development; IMP:ZFIN.
DR   GO; GO:0008045; P:motor neuron axon guidance; IMP:ZFIN.
DR   GO; GO:0048387; P:negative regulation of retinoic acid receptor signaling pathway; IMP:ZFIN.
DR   GO; GO:0001755; P:neural crest cell migration; IGI:ZFIN.
DR   GO; GO:0033339; P:pectoral fin development; IMP:ZFIN.
DR   GO; GO:0072149; P:podocyte cell fate commitment; IGI:ZFIN.
DR   GO; GO:0072015; P:podocyte development; IMP:ZFIN.
DR   GO; GO:0039021; P:pronephric glomerulus development; IGI:ZFIN.
DR   GO; GO:0030500; P:regulation of bone mineralization; IMP:ZFIN.
DR   GO; GO:0040036; P:regulation of fibroblast growth factor receptor signaling pathway; IMP:ZFIN.
DR   GO; GO:0008593; P:regulation of Notch signaling pathway; IMP:ZFIN.
DR   GO; GO:2000583; P:regulation of platelet-derived growth factor receptor-alpha signaling pathway; IGI:ZFIN.
DR   GO; GO:0006357; P:regulation of transcription by RNA polymerase II; IBA:GO_Central.
DR   GO; GO:0043114; P:regulation of vascular permeability; IGI:ZFIN.
DR   GO; GO:0001756; P:somitogenesis; IMP:ZFIN.
DR   GO; GO:0035886; P:vascular associated smooth muscle cell differentiation; IMP:ZFIN.
DR   GO; GO:0001944; P:vasculature development; IMP:ZFIN.
DR   CDD; cd20044; FH_FOXC1; 1.
DR   Gene3D; 1.10.10.10; Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain; 1.
DR   InterPro; IPR001766; Fork_head_dom.
DR   InterPro; IPR047391; FOXC1/C2-like_FH.
DR   InterPro; IPR018122; TF_fork_head_CS_1.
DR   InterPro; IPR030456; TF_fork_head_CS_2.
DR   InterPro; IPR036388; WH-like_DNA-bd_sf.
DR   InterPro; IPR036390; WH_DNA-bd_sf.
DR   PANTHER; PTHR11829:SF401; FORKHEAD BOX C1-A-RELATED; 1.
DR   PANTHER; PTHR11829; FORKHEAD BOX PROTEIN; 1.
DR   Pfam; PF00250; Forkhead; 1.
DR   PRINTS; PR00053; FORKHEAD.
DR   SMART; SM00339; FH; 1.
DR   SUPFAM; SSF46785; Winged helix' DNA-binding domain; 1.
DR   PROSITE; PS00657; FORK_HEAD_1; 1.
DR   PROSITE; PS00658; FORK_HEAD_2; 1.
DR   PROSITE; PS50039; FORK_HEAD_3; 1.
PE   2: Evidence at transcript level;
KW   DNA-binding; Nucleus; Reference proteome; Transcription;
KW   Transcription regulation.
FT   CHAIN           1..476
FT                   /note="Forkhead box C1-A"
FT                   /id="PRO_0000419248"
FT   DNA_BIND        74..168
FT                   /note="Fork-head"
FT                   /evidence="ECO:0000255|PROSITE-ProRule:PRU00089"
FT   REGION          169..271
FT                   /note="Disordered"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   REGION          284..303
FT                   /note="Disordered"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   COMPBIAS        192..268
FT                   /note="Polar residues"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
SQ   SEQUENCE   476 AA;  52173 MW;  E79BD7030D20B2D0 CRC64;
     MQARYSVSSP NSLGVVPYIS SDQSYYRAAA GGGYTGMPAP MTMYSHAAHD QYPASMARAY
     GPYTPQPQPK DMVKPPYSYI ALITMAIQNS PDKKVTLNGI YQFIMERFPF YRDNKQGWQN
     SIRHNLSLNE CFVKVPRDDK KPGKGSYWTL DPDSYNMFEN GSFLRRRRRF KKKDAMKDKE
     DRGVKEAPSR QAQPQAREQE QSVPGSQPVR IQDIKTENGT STPPQAVSPT LSTVPKIESP
     DSSSSMSSGS PHSIPSTRSL SLDSAGEQHH QAPAQGFSVD NIMTSLRGSP HSSGELTPSL
     VAPSRTGITP TLSLNYSPNQ SSVYSSPCSQ NSISTTSNAT YHCNMQAMSL YAGGDRSGHL
     GTTATTVDET LPDYSITTTT SSLSHGNLSS AQEGHHPHQG RLASWYLNQA GDIGHLGATY
     PAQQQNFHSV REMFESQRIG LNNSPVNGNN SCQMSFPPSQ PIYRTSGAFV YDCSKF
//