ID   HXC4A_DANRE             Reviewed;         268 AA.
AC   Q9PWM3; A2BE61; O57367; Q4PR91; Q561X5;
DT   01-FEB-2005, integrated into UniProtKB/Swiss-Prot.
DT   01-MAY-2000, sequence version 1.
DT   03-AUG-2022, entry version 134.
DE   RecName: Full=Homeobox protein Hox-C4a;
DE            Short=Hox-C4;
GN   Name=hoxc4a; Synonyms=hoxc4; ORFNames=si:dkey-81p22.8, zgc:110513;
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].
RX   PubMed=9831563; DOI=10.1126/science.282.5394.1711;
RA   Amores A., Force A., Yan Y.-L., Joly L., Amemiya C., Fritz A., Ho R.K.,
RA   Langeland J., Prince V.E., Wang Y.-L., Westerfield M., Ekker M.,
RA   Postlethwait J.H.;
RT   "Zebrafish hox clusters and vertebrate genome evolution.";
RL   Science 282:1711-1714(1998).
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 (APR-2005) to the EMBL/GenBank/DDBJ databases.
RN   [4]
RP   NUCLEOTIDE SEQUENCE [MRNA] OF 74-154.
RC   STRAIN=Tuebingen;
RX   PubMed=16174031; DOI=10.1111/j.1525-142x.2005.05042.x;
RA   Corredor-Adamez M., Welten M.C.M., Spaink H.P., Jeffery J.E., Schoon R.T.,
RA   de Bakker M.A.G., Bagowski C.P., Meijer A.H., Verbeek F.J.,
RA   Richardson M.K.;
RT   "Genomic annotation and transcriptome analysis of the zebrafish (Danio
RT   rerio) hox complex with description of a novel member, hoxb13a.";
RL   Evol. Dev. 7:362-375(2005).
RN   [5]
RP   NUCLEOTIDE SEQUENCE [MRNA] OF 195-268, AND DEVELOPMENTAL STAGE.
RC   TISSUE=Embryo;
RX   PubMed=9425136; DOI=10.1242/dev.125.3.407;
RA   Prince V.E., Joly L., Ekker M., Ho R.K.;
RT   "Zebrafish hox genes: genomic organization and modified colinear expression
RT   patterns in the trunk.";
RL   Development 125:407-420(1998).
CC   -!- FUNCTION: Sequence-specific transcription factor which is part of a
CC       developmental regulatory system that provides cells with specific
CC       positional identities on the anterior-posterior axis. {ECO:0000250}.
CC   -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000255|PROSITE-ProRule:PRU00108}.
CC   -!- DEVELOPMENTAL STAGE: At the 10-somite stage, barely expressed in the
CC       paraxial mesoderm. At the 20-somite stage, expressed in the developing
CC       CNS with an anterior expression limit within rhombomere 7.
CC       {ECO:0000269|PubMed:9425136}.
CC   -!- SIMILARITY: Belongs to the Antp homeobox family. Deformed subfamily.
CC       {ECO:0000305}.
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DR   EMBL; AF071264; AAD15957.1; -; Genomic_DNA.
DR   EMBL; BX005254; CAM16415.1; -; Genomic_DNA.
DR   EMBL; BC092923; AAH92923.1; -; mRNA.
DR   EMBL; DQ060552; AAY67930.1; -; mRNA.
DR   EMBL; Y14545; CAA74880.1; -; mRNA.
DR   RefSeq; NP_571197.1; NM_131122.2.
DR   AlphaFoldDB; Q9PWM3; -.
DR   SMR; Q9PWM3; -.
DR   STRING; 7955.ENSDARP00000093906; -.
DR   PaxDb; Q9PWM3; -.
DR   Ensembl; ENSDART00000103132; ENSDARP00000093906; ENSDARG00000070338.
DR   GeneID; 30345; -.
DR   KEGG; dre:30345; -.
DR   CTD; 30345; -.
DR   ZFIN; ZDB-GENE-990415-112; hoxc4a.
DR   eggNOG; KOG0489; Eukaryota.
DR   GeneTree; ENSGT00940000160794; -.
DR   HOGENOM; CLU_061398_0_0_1; -.
DR   InParanoid; Q9PWM3; -.
DR   OMA; SCASIQA; -.
DR   OrthoDB; 1154159at2759; -.
DR   PhylomeDB; Q9PWM3; -.
DR   TreeFam; TF352857; -.
DR   PRO; PR:Q9PWM3; -.
DR   Proteomes; UP000000437; Genome assembly.
DR   Proteomes; UP000814640; Chromosome 23.
DR   Bgee; ENSDARG00000070338; Expressed in spinal cord and 15 other tissues.
DR   ExpressionAtlas; Q9PWM3; baseline.
DR   GO; GO:0005634; C:nucleus; IBA:GO_Central.
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:0009952; P:anterior/posterior pattern specification; IBA:GO_Central.
DR   GO; GO:0048704; P:embryonic skeletal system morphogenesis; IBA:GO_Central.
DR   GO; GO:0006357; P:regulation of transcription by RNA polymerase II; IBA:GO_Central.
DR   CDD; cd00086; homeodomain; 1.
DR   InterPro; IPR009057; Homeobox-like_sf.
DR   InterPro; IPR017995; Homeobox_antennapedia.
DR   InterPro; IPR001827; Homeobox_Antennapedia_CS.
DR   InterPro; IPR017970; Homeobox_CS.
DR   InterPro; IPR001356; Homeobox_dom.
DR   InterPro; IPR020479; Homeobox_metazoa.
DR   Pfam; PF00046; Homeodomain; 1.
DR   PRINTS; PR00025; ANTENNAPEDIA.
DR   PRINTS; PR00024; HOMEOBOX.
DR   SMART; SM00389; HOX; 1.
DR   SUPFAM; SSF46689; SSF46689; 1.
DR   PROSITE; PS00032; ANTENNAPEDIA; 1.
DR   PROSITE; PS00027; HOMEOBOX_1; 1.
DR   PROSITE; PS50071; HOMEOBOX_2; 1.
PE   2: Evidence at transcript level;
KW   Developmental protein; DNA-binding; Homeobox; Nucleus; Reference proteome;
KW   Transcription; Transcription regulation.
FT   CHAIN           1..268
FT                   /note="Homeobox protein Hox-C4a"
FT                   /id="PRO_0000200167"
FT   DNA_BIND        154..213
FT                   /note="Homeobox"
FT                   /evidence="ECO:0000255|PROSITE-ProRule:PRU00108"
FT   REGION          70..129
FT                   /note="Disordered"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   REGION          212..268
FT                   /note="Disordered"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   MOTIF           133..138
FT                   /note="Antp-type hexapeptide"
FT   COMPBIAS        106..129
FT                   /note="Polar residues"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   COMPBIAS        219..256
FT                   /note="Polar residues"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
SQ   SEQUENCE   268 AA;  30111 MW;  2D72E286CDD2C39A CRC64;
     MIMSSYLMDS NYIDPKFPPC EEYSQNSYIP EHSPEYYSRA RDSGYQHHHQ ELYPPRASYQ
     ERQYNCASIP EPDTQRGHGL PHAGHLLGKG QSASCEPPPL PLSPATPSAA SSACNQATPE
     HPNSSASAKQ PVVYPWMKKI HVSTVNSSYN GAEPKRSRTA YTRQQVLELE KEFHYNRYLT
     RRRRIEIAHS LVLSERQIKI WFQNRRMKWK KDHRLPNTKV RSSSSTGISS GSNTSSAAGV
     VAAASTTNTM SASEDLSGTE RGEDITRL