HXA9A_DANRE
ID HXA9A_DANRE Reviewed; 250 AA.
AC Q9PWL6; O57376; Q4PRA8; Q5CZU7;
DT 01-FEB-2005, integrated into UniProtKB/Swiss-Prot.
DT 11-JUL-2006, sequence version 2.
DT 03-AUG-2022, entry version 136.
DE RecName: Full=Homeobox protein Hox-A9a;
DE Short=Hoxx9;
GN Name=hoxa9a; Synonyms=hoxx9; ORFNames=zgc:110505;
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 (FEB-2005) to the EMBL/GenBank/DDBJ databases.
RN [4]
RP NUCLEOTIDE SEQUENCE [MRNA] OF 71-181.
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 214-250, 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, expressed in the paraxial
CC mesoderm with an anterior expression limit at somite 8. At the 20-
CC somite stage, expressed within the developing CNS with an anterior
CC expression limit adjacent to the somite 4/5 boundary.
CC {ECO:0000269|PubMed:9425136}.
CC -!- SIMILARITY: Belongs to the Abd-B homeobox family. {ECO:0000305}.
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DR EMBL; AF071248; AAD15941.1; -; Genomic_DNA.
DR EMBL; CR382300; CAK10848.1; -; Genomic_DNA.
DR EMBL; BC090700; AAH90700.1; -; mRNA.
DR EMBL; DQ060535; AAY67913.1; -; mRNA.
DR EMBL; Y14538; CAA74873.1; -; mRNA.
DR RefSeq; NP_571607.2; NM_131532.2.
DR AlphaFoldDB; Q9PWL6; -.
DR SMR; Q9PWL6; -.
DR STRING; 7955.ENSDARP00000009894; -.
DR PaxDb; Q9PWL6; -.
DR Ensembl; ENSDART00000166129; ENSDARP00000139889; ENSDARG00000105013.
DR Ensembl; ENSDART00000168041; ENSDARP00000140324; ENSDARG00000105013.
DR GeneID; 58047; -.
DR KEGG; dre:58047; -.
DR CTD; 58047; -.
DR ZFIN; ZDB-GENE-000823-1; hoxa9a.
DR eggNOG; KOG0487; Eukaryota.
DR GeneTree; ENSGT00940000164628; -.
DR HOGENOM; CLU_071854_0_0_1; -.
DR InParanoid; Q9PWL6; -.
DR OMA; WGHISEP; -.
DR OrthoDB; 976319at2759; -.
DR PhylomeDB; Q9PWL6; -.
DR TreeFam; TF317819; -.
DR PRO; PR:Q9PWL6; -.
DR Proteomes; UP000000437; Genome assembly.
DR Proteomes; UP000814640; Chromosome 19.
DR Bgee; ENSDARG00000105013; Expressed in tail bud paraxial mesoderm and 27 other tissues.
DR ExpressionAtlas; Q9PWL6; baseline.
DR GO; GO:0005634; C:nucleus; IBA:GO_Central.
DR GO; GO:0003700; F:DNA-binding transcription factor activity; IBA:GO_Central.
DR GO; GO:0000981; F:DNA-binding transcription factor activity, RNA polymerase II-specific; IEA:InterPro.
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:0009954; P:proximal/distal pattern formation; IBA:GO_Central.
DR GO; GO:0006357; P:regulation of transcription by RNA polymerase II; IBA:GO_Central.
DR GO; GO:0006351; P:transcription, DNA-templated; IEA:InterPro.
DR CDD; cd00086; homeodomain; 1.
DR InterPro; IPR009057; Homeobox-like_sf.
DR InterPro; IPR017970; Homeobox_CS.
DR InterPro; IPR001356; Homeobox_dom.
DR InterPro; IPR020479; Homeobox_metazoa.
DR InterPro; IPR006711; Hox9_activation_N.
DR InterPro; IPR017112; HXA9/HXB9/HXC9.
DR Pfam; PF00046; Homeodomain; 1.
DR Pfam; PF04617; Hox9_act; 1.
DR PIRSF; PIRSF037109; Homeobox_Hox9; 1.
DR PRINTS; PR00024; HOMEOBOX.
DR SMART; SM00389; HOX; 1.
DR SUPFAM; SSF46689; SSF46689; 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..250
FT /note="Homeobox protein Hox-A9a"
FT /id="PRO_0000200084"
FT DNA_BIND 184..243
FT /note="Homeobox"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00108"
FT REGION 105..177
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 126..151
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 152..166
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT CONFLICT 166..170
FT /note="KPGAD -> NRALI (in Ref. 1; AAD15941)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 250 AA; 28010 MW; C15D508AABAC1547 CRC64;
MSTSGALTGY YVDSIVIPGS EETRFSSGLG LIQHRPTILP ADLSDLGPCT FPAKQPVYGT
SDWGHIPTHF STGVPSVYQP HAQPPVVGDY VQSWLLDSAC GLPQTEPPTV NHNHAKSDTN
ETNDDGTEYS PHTILQPEVF TNGGCSTKTE AESSRTAEKS GDIEGKPGAD PENPVSNWLH
ASSTRKKRCP YTKHQILELE KEFLFNTYLT RDRRYEVARL LNLTERQVKI WFQNRRMKMK
KFNKNETKED
