ID   HXB9A_DANRE             Reviewed;         249 AA.
AC   Q9PWM2; O57364; Q4PR99; Q4V9D1; Q5XJI9; Q6TNT7;
DT   01-FEB-2005, integrated into UniProtKB/Swiss-Prot.
DT   25-JUL-2006, sequence version 2.
DT   03-AUG-2022, entry version 137.
DE   RecName: Full=Homeobox protein Hox-B9a;
DE            Short=Hox-B9;
GN   Name=hoxb9a; Synonyms=hoxb9;
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 MRNA].
RC   TISSUE=Kidney marrow;
RX   PubMed=15520368; DOI=10.1073/pnas.0407241101;
RA   Song H.-D., Sun X.-J., Deng M., Zhang G.-W., Zhou Y., Wu X.-Y., Sheng Y.,
RA   Chen Y., Ruan Z., Jiang C.-L., Fan H.-Y., Zon L.I., Kanki J.P., Liu T.X.,
RA   Look A.T., Chen Z.;
RT   "Hematopoietic gene expression profile in zebrafish kidney marrow.";
RL   Proc. Natl. Acad. Sci. U.S.A. 101:16240-16245(2004).
RN   [3]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC   TISSUE=Larva;
RG   NIH - Zebrafish Gene Collection (ZGC) project;
RL   Submitted (JUN-2005) to the EMBL/GenBank/DDBJ databases.
RN   [4]
RP   NUCLEOTIDE SEQUENCE [MRNA] OF 83-183.
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 218-249, 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 7. At the 20-
CC       somite stage, expressed in the developing CNS with an anterior
CC       expression limit adjacent to the somite 3/somite 4 boundary.
CC       {ECO:0000269|PubMed:9425136}.
CC   -!- SIMILARITY: Belongs to the Abd-B homeobox family. {ECO:0000305}.
CC   -!- SEQUENCE CAUTION:
CC       Sequence=AAH83312.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence.; Evidence={ECO:0000305};
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DR   EMBL; AF071256; AAD15949.1; -; Genomic_DNA.
DR   EMBL; AY391430; AAQ91242.1; -; mRNA.
DR   EMBL; BC083312; AAH83312.1; ALT_SEQ; mRNA.
DR   EMBL; BC096950; AAH96950.1; -; mRNA.
DR   EMBL; DQ060544; AAY67922.1; -; mRNA.
DR   EMBL; Y14529; CAA74864.1; -; mRNA.
DR   RefSeq; NP_571196.2; NM_131121.2.
DR   AlphaFoldDB; Q9PWM2; -.
DR   SMR; Q9PWM2; -.
DR   STRING; 7955.ENSDARP00000007852; -.
DR   PaxDb; Q9PWM2; -.
DR   Ensembl; ENSDART00000023674; ENSDARP00000022169; ENSDARG00000056023.
DR   GeneID; 30344; -.
DR   KEGG; dre:30344; -.
DR   CTD; 30344; -.
DR   ZFIN; ZDB-GENE-990415-109; hoxb9a.
DR   eggNOG; KOG0487; Eukaryota.
DR   GeneTree; ENSGT00940000161386; -.
DR   HOGENOM; CLU_071854_1_0_1; -.
DR   InParanoid; Q9PWM2; -.
DR   OMA; EDSKDIC; -.
DR   OrthoDB; 976319at2759; -.
DR   PhylomeDB; Q9PWM2; -.
DR   TreeFam; TF317819; -.
DR   PRO; PR:Q9PWM2; -.
DR   Proteomes; UP000000437; Genome assembly.
DR   Proteomes; UP000814640; Chromosome 3.
DR   Bgee; ENSDARG00000056023; Expressed in somite and 16 other tissues.
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..249
FT                   /note="Homeobox protein Hox-B9a"
FT                   /id="PRO_0000200157"
FT   DNA_BIND        184..243
FT                   /note="Homeobox"
FT                   /evidence="ECO:0000255|PROSITE-ProRule:PRU00108"
FT   REGION          146..182
FT                   /note="Disordered"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   COMPBIAS        150..171
FT                   /note="Basic and acidic residues"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   CONFLICT        158
FT                   /note="D -> E (in Ref. 3; AAH96950)"
FT                   /evidence="ECO:0000305"
FT   CONFLICT        159..186
FT                   /note="ICEGSEDKEGPDQNDPSANWLHARSSRK -> MRRQRRQRGTGSKRPICQLV
FT                   TRSIIPE (in Ref. 2; AAQ91242)"
FT                   /evidence="ECO:0000305"
FT   CONFLICT        166
FT                   /note="K -> I (in Ref. 3; AAH83312)"
FT                   /evidence="ECO:0000305"
FT   CONFLICT        168..171
FT                   /note="GPDQ -> DRIKVSYNLG (in Ref. 1; AAD15949)"
FT                   /evidence="ECO:0000305"
SQ   SEQUENCE   249 AA;  28438 MW;  80299D248C51E5DD CRC64;
     MSISGTLSNY YVDSIISHEG EDPNASRFSN VQYSSARQPG PGEHPEFPSC SFQPKPPVFS
     SSWSPFSSHA SNGLPAVYHP YIPTQPVPST DTRYLRTWLD CAPRAEPLPG QGQVKMEPLL
     GHLGEPPKLV GQHEYILESS TAREINSGHS AGFEDNKDIC EGSEDKEGPD QNDPSANWLH
     ARSSRKKRCP YTKYQTLELE KEFLFNMYLT RDRRHEVARL LNLTERQVKI WFQNRRMKMK
     KMNKDQPKE