LOCUS       NM_131541               2134 bp    mRNA    linear   VRT 03-APR-2024
DEFINITION  Danio rerio homeobox B10a (hoxb10a), mRNA.
ACCESSION   NM_131541 XM_001336281
VERSION     NM_131541.1
KEYWORDS    RefSeq.
SOURCE      Danio rerio (zebrafish)
  ORGANISM  Danio rerio
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Actinopterygii; Neopterygii; Teleostei; Ostariophysi;
            Cypriniformes; Danionidae; Danioninae; Danio.
REFERENCE   1  (bases 1 to 2134)
  AUTHORS   Yamada,K., Maeno,A., Araki,S., Kikuchi,M., Suzuki,M., Ishizaka,M.,
            Satoh,K., Akama,K., Kawabe,Y., Suzuki,K., Kobayashi,D., Hamano,N.
            and Kawamura,A.
  TITLE     An atlas of seven zebrafish hox cluster mutants provides insights
            into sub/neofunctionalization of vertebrate Hox clusters
  JOURNAL   Development 148 (11) (2021)
   PUBMED   34096572
REFERENCE   2  (bases 1 to 2134)
  AUTHORS   Malmstrom,M., Britz,R., Matschiner,M., Torresen,O.K., Hadiaty,R.K.,
            Yaakob,N., Tan,H.H., Jakobsen,K.S., Salzburger,W. and Ruber,L.
  TITLE     The Most Developmentally Truncated Fishes Show Extensive Hox Gene
            Loss and Miniaturized Genomes
  JOURNAL   Genome Biol Evol 10 (4), 1088-1103 (2018)
   PUBMED   29684203
REFERENCE   3  (bases 1 to 2134)
  AUTHORS   Payumo,A.Y., McQuade,L.E., Walker,W.J., Yamazoe,S. and Chen,J.K.
  TITLE     Tbx16 regulates hox gene activation in mesodermal progenitor cells
  JOURNAL   Nat Chem Biol 12 (9), 694-701 (2016)
   PUBMED   27376691
REFERENCE   4  (bases 1 to 2134)
  AUTHORS   Hayward,A.G. 2nd, Joshi,P. and Skromne,I.
  TITLE     Spatiotemporal analysis of zebrafish hox gene regulation by Cdx4
  JOURNAL   Dev Dyn 244 (12), 1564-1573 (2015)
   PUBMED   26335559
REFERENCE   5  (bases 1 to 2134)
  AUTHORS   Elkon,R., Milon,B., Morrison,L., Shah,M., Vijayakumar,S.,
            Racherla,M., Leitch,C.C., Silipino,L., Hadi,S., Weiss-Gayet,M.,
            Barras,E., Schmid,C.D., Ait-Lounis,A., Barnes,A., Song,Y.,
            Eisenman,D.J., Eliyahu,E., Frolenkov,G.I., Strome,S.E., Durand,B.,
            Zaghloul,N.A., Jones,S.M., Reith,W. and Hertzano,R.
  TITLE     RFX transcription factors are essential for hearing in mice
  JOURNAL   Nat Commun 6, 8549 (2015)
   PUBMED   26469318
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 2134)
  AUTHORS   Ng,Y.K., Wu,W. and Zhang,L.
  TITLE     Positive correlation between gene coexpression and positional
            clustering in the zebrafish genome
  JOURNAL   BMC Genomics 10, 42 (2009)
   PUBMED   19159490
  REMARK    Publication Status: Online-Only
REFERENCE   7  (bases 1 to 2134)
  AUTHORS   Kurosawa,G., Takamatsu,N., Takahashi,M., Sumitomo,M., Sanaka,E.,
            Yamada,K., Nishii,K., Matsuda,M., Asakawa,S., Ishiguro,H.,
            Miura,K., Kurosawa,Y., Shimizu,N., Kohara,Y. and Hori,H.
  TITLE     Organization and structure of hox gene loci in medaka genome and
            comparison with those of pufferfish and zebrafish genomes
  JOURNAL   Gene 370, 75-82 (2006)
   PUBMED   16472944
  REMARK    Erratum:[Gene. 2006 Jul;376(2):298-9]
REFERENCE   8  (bases 1 to 2134)
  AUTHORS   Santini,S. and Bernardi,G.
  TITLE     Organization and base composition of tilapia Hox genes:
            implications for the evolution of Hox clusters in fish
  JOURNAL   Gene 346, 51-61 (2005)
   PUBMED   15716008
REFERENCE   9  (bases 1 to 2134)
  AUTHORS   Prohaska,S.J. and Stadler,P.F.
  TITLE     The duplication of the Hox gene clusters in teleost fishes
  JOURNAL   Theory Biosci 123 (1), 89-110 (2004)
   PUBMED   18202881
REFERENCE   10 (bases 1 to 2134)
  AUTHORS   Feldman,B., Dougan,S.T., Schier,A.F. and Talbot,W.S.
  TITLE     Nodal-related signals establish mesendodermal fate and trunk neural
            identity in zebrafish
  JOURNAL   Curr Biol 10 (9), 531-534 (2000)
   PUBMED   10801442
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            BX927395.19.
            
            On Mar 22, 2009 this sequence version replaced XM_001336281.1.
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on alignments.
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            Transcript exon combination :: GDQH01018702.1, GDQQ01015908.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA3505370, SAMEA3505371
                                           [ECO:0000348]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-866               BX927395.19        61676-62541         c
            867-2134            BX927395.19        59228-60495         c
FEATURES             Location/Qualifiers
     source          1..2134
                     /organism="Danio rerio"
                     /mol_type="mRNA"
                     /strain="Tuebingen"
                     /db_xref="taxon:7955"
                     /chromosome="3"
                     /map="3"
     gene            1..2134
                     /gene="hoxb10a"
                     /gene_synonym="hoxb10; im:7139959; wu:fc25g03; z-122"
                     /note="homeobox B10a"
                     /db_xref="GeneID:58056"
                     /db_xref="ZFIN:ZDB-GENE-000328-2"
     exon            1..866
                     /gene="hoxb10a"
                     /gene_synonym="hoxb10; im:7139959; wu:fc25g03; z-122"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    293..295
                     /gene="hoxb10a"
                     /gene_synonym="hoxb10; im:7139959; wu:fc25g03; z-122"
                     /note="upstream in-frame stop codon"
     CDS             299..1138
                     /gene="hoxb10a"
                     /gene_synonym="hoxb10; im:7139959; wu:fc25g03; z-122"
                     /note="hox-B10; homeobox gene B-10; homeo box B10a"
                     /codon_start=1
                     /product="homeobox protein Hox-B10a"
                     /protein_id="NP_571616.1"
                     /db_xref="GeneID:58056"
                     /db_xref="ZFIN:ZDB-GENE-000328-2"
                     /translation="

MALHRHPFVHGAASWDGEQPSPVQLPHISACPFTSSGRKEDPFYFTLDPTGQARQPLDISAFSRIMTDMGSLNSADDHRPETSFYSGHKLLSLNTNTDPESPSLSSHSDSQHLHSLSLSAPCSETDNKHDMQYLAMESTKYPSQWSESRTNRSIITTLSISQRSKDDIEPNNLQTDFTRGDKTPREKTQDVTLENAANGWLSAKAGRKKRCPYSKHQILELEKEFLFNMYLTRERRLEISRSINLTDRQVKIWFQNRRMKLKKMTREHRTRDPGTSFTV"

     misc_feature    569..634
                     /gene="hoxb10a"
                     /gene_synonym="hoxb10; im:7139959; wu:fc25g03; z-122"
                     /note="propagated from UniProtKB/Swiss-Prot (Q9PWL7.2);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     misc_feature    797..859
                     /gene="hoxb10a"
                     /gene_synonym="hoxb10; im:7139959; wu:fc25g03; z-122"
                     /note="propagated from UniProtKB/Swiss-Prot (Q9PWL7.2);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     misc_feature    917..1087
                     /gene="hoxb10a"
                     /gene_synonym="hoxb10; im:7139959; wu:fc25g03; z-122"
                     /note="Region: Homeodomain; pfam00046"
                     /db_xref="CDD:459649"
     exon            867..2134
                     /gene="hoxb10a"
                     /gene_synonym="hoxb10; im:7139959; wu:fc25g03; z-122"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

gcagaatgaaacgtacgtgcgccatggtggttgaaaagccaattgaaagggacactattgccttggcccaaaatatgctccagcaatgtcatactccgagagattctctgcggtgattgtcacactgtctgagaggaaaattttcgatagcccaggtcataaggatcctttgcgtggggcgaacggaggctcatgtcctaacctggactgccaagtccaaaatagcgggaccaccccggcgcactcgatcgcgttccagatagtaaaccagattcagacatccccggttcagtaagccatggctctgcatcgtcatccgtttgtccatggagctgcgagctgggatggagagcaaccgagtcccgttcagcttccccacatcagcgcgtgccccttcacttcttcaggtcgaaaagaagaccctttctattttactctggacccgacagggcaagccaggcagcctctcgacatctccgctttcagcagaatcatgacagatatgggctctctgaacagtgcagacgaccatcgtccagaaacgtctttttactccggacacaaactgttgtcactcaataccaacacggatccagagagtccatcgctttcttcccactcagactcacaacatttgcacagtctgtctttgtccgcaccgtgttcagaaactgacaataagcatgatatgcaatatttagcaatggaaagcacaaaatacccaagtcagtggagtgaaagcagaaccaacaggagcatcattactacactgagcatcagtcagagaagtaaagacgacatagagccaaataacctccagacagactttaccaggggcgataaaactccaagagagaagacacaagatgtgaccttagaaaatgctgcaaatggctggctttcggcgaaagcgggaagaaagaagcgatgtccttacagcaaacaccaaatcttagagctggaaaaggaattcctattcaacatgtacctgactcgcgagcgccgcctggagattagccggagcataaatctcaccgaccgccaggttaagatatggtttcaaaatcgcaggatgaaactgaaaaaaatgactcgagagcaccggaccagggaccctggtacaagtttcactgtctagtttgtcatgtaatacggttgaatagaccgaactcagcgcacaaatcattttagtcatcatccgttgcaagtggactgatgcaactgctgcttctgatggattaacgggaggaagcgatctgtcaaatcttactacggcggttcacaatgtgtactatgatgcaaatgtaagggatataaatttaatacctcgcatggagaataaacgaatgtgtaaaaaaagaagacacggctttggccattcggtgaaagctgaaagctattcggaaagcccctgaacactgtttattgatgtcgtttatgttgtgaccgacctttttaacgagggaatgttttgtaattttcaataggctatctgacttatgatttcccactgtatgagttcttctttctttgttttttcaggttataaatgctgtagcgatttttacacagccttagtatttattacttgagtagcccaactaagaacatttgcggaaactacggagtggcctaaacaaatctattagaaatagtaaagtattttaagtgctaagatttgacaccaagcacaggtactgttgttgttttttcaaatctgtgttgtttagtaaccatattggctcgaaagattgttctgctgaagcatggttgaatgtacttaagctgtgatacttcatttgtttgtgttttaaaaagcagatagttttaaataaaatattgccatacgtgaccataaaatgttccccgtaaagtttgacagatgtcattttgaaaatttcttgatttattaaaatgtgcctatttaatataatatctccagtgttatagtactgtgacagatgtgaaaagtagaccaataattattcaatccaattaatgcttatttatatagcgctttttacaaagtagcgtgtgtaaaagcagcttagcatagttctagtaaagtccaaatttcagagttgaagtttagtttagttcagttcagtgtgttttaaatcaaactcaaatgtta

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