LOCUS       NM_204139               2457 bp    mRNA    linear   VRT 07-AUG-2024
DEFINITION  Gallus gallus homeobox A13 (HOXA13), mRNA.
ACCESSION   NM_204139
VERSION     NM_204139.2
KEYWORDS    RefSeq.
SOURCE      Gallus gallus (chicken)
  ORGANISM  Gallus gallus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Archelosauria; Archosauria; Dinosauria; Saurischia; Theropoda;
            Coelurosauria; Aves; Neognathae; Galloanserae; Galliformes;
            Phasianidae; Phasianinae; Gallus.
REFERENCE   1  (bases 1 to 2457)
  AUTHORS   Tang,H., Finn,R.D. and Thomas,P.D.
  TITLE     TreeGrafter: phylogenetic tree-based annotation of proteins with
            Gene Ontology terms and other annotations
  JOURNAL   Bioinformatics 35 (3), 518-520 (2019)
   PUBMED   30032202
REFERENCE   2  (bases 1 to 2457)
  AUTHORS   Saiz-Lopez,P., Chinnaiya,K., Campa,V.M., Delgado,I., Ros,M.A. and
            Towers,M.
  TITLE     An intrinsic timer specifies distal structures of the vertebrate
            limb
  JOURNAL   Nat Commun 6, 8108 (2015)
   PUBMED   26381580
  REMARK    GeneRIF: During limb development, distal mesenchyme cells
            intrinsically time Hoxa13 expression, cell cycle parameters and the
            duration of the overlying apical ectodermal ridge.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 2457)
  AUTHORS   Burge,S., Kelly,E., Lonsdale,D., Mutowo-Muellenet,P., McAnulla,C.,
            Mitchell,A., Sangrador-Vegas,A., Yong,S.Y., Mulder,N. and Hunter,S.
  TITLE     Manual GO annotation of predictive protein signatures: the InterPro
            approach to GO curation
  JOURNAL   Database (Oxford) 2012, bar068 (2012)
   PUBMED   22301074
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 2457)
  AUTHORS   Yamamoto,M. and Kuroiwa,A.
  TITLE     Hoxa-11 and Hoxa-13 are involved in repression of MyoD during limb
            muscle development
  JOURNAL   Dev Growth Differ 45 (5-6), 485-498 (2003)
   PUBMED   14706073
  REMARK    GeneRIF: Hoxa-11 and Hoxa-13 are involved in the negative
            regulation of MyoD expression in limb muscle precursors
REFERENCE   5  (bases 1 to 2457)
  AUTHORS   de Santa Barbara,P. and Roberts,D.J.
  TITLE     Tail gut endoderm and gut/genitourinary/tail development: a new
            tissue-specific role for Hoxa13
  JOURNAL   Development 129 (3), 551-561 (2002)
   PUBMED   11830557
REFERENCE   6  (bases 1 to 2457)
  AUTHORS   Mortlock,D.P., Sateesh,P. and Innis,J.W.
  TITLE     Evolution of N-terminal sequences of the vertebrate HOXA13 protein
  JOURNAL   Mamm Genome 11 (2), 151-158 (2000)
   PUBMED   10656931
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAENSK010000037.1.
            
            On Nov 25, 2021 this sequence version replaced NM_204139.1.
            
            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 transcript alignments.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR13267660.11606.1, AY030050.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA103992323, SAMEA103992432
                                           [ECO:0000348]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-724               JAENSK010000037.1  1612376-1613099     c
            725-2457            JAENSK010000037.1  1610129-1611861     c
FEATURES             Location/Qualifiers
     source          1..2457
                     /organism="Gallus gallus"
                     /mol_type="mRNA"
                     /db_xref="taxon:9031"
                     /chromosome="2"
                     /map="2"
     gene            1..2457
                     /gene="HOXA13"
                     /gene_synonym="Hox A13"
                     /note="homeobox A13"
                     /db_xref="CGNC:16060"
                     /db_xref="GeneID:373934"
     exon            1..724
                     /gene="HOXA13"
                     /gene_synonym="Hox A13"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    16..18
                     /gene="HOXA13"
                     /gene_synonym="Hox A13"
                     /note="upstream in-frame stop codon"
     CDS             52..969
                     /gene="HOXA13"
                     /gene_synonym="Hox A13"
                     /note="homeo box A13; transcription factor HOXA13;
                     homeobox protein HOXA13; HOX protein"
                     /codon_start=1
                     /product="homeobox protein Hox-A13"
                     /protein_id="NP_989470.2"
                     /db_xref="CGNC:16060"
                     /db_xref="GeneID:373934"
                     /translation="

MTASVLLHPRWIEPVMFLYDNSLDEINKNMDGFHAGSNFAAAAAANPCRNLMAHPAPLAAPSAAAYTSSEAPAAGMAEPAVKQCSPCSAAVQSSSGAALPYGYFGSGYYPCRMTHHNAIKSCAQPASTFADKYMDTSVSGEEFTSRAKEFAFYQGYAAGPYQPVPGYLDVPVVPTIGGPGEPRHDSLLPMDSYQPWAITNGWNGQVYCPKEQSQPPHLWKSTLPDVVSHPSDANSYRRGRKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQVTIWFQNRRVKEKKVINKLKTTS"

     misc_feature    130..489
                     /gene="HOXA13"
                     /gene_synonym="Hox A13"
                     /note="Hox protein A13 N terminal; Region: HoxA13_N;
                     pfam12284"
                     /db_xref="CDD:463521"
     misc_feature    769..939
                     /gene="HOXA13"
                     /gene_synonym="Hox A13"
                     /note="Region: Homeodomain; pfam00046"
                     /db_xref="CDD:459649"
     exon            725..2457
                     /gene="HOXA13"
                     /gene_synonym="Hox A13"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

agtctttggggcttttaaaaaagagccactagtctcaatgcggagcgggctatgacagcctccgtgctcctccacccccgctggatcgagcccgtcatgttcctctacgacaacagcctggatgagatcaataagaacatggacgggtttcacgccggcagcaacttcgcggcggctgcggcggccaacccgtgccgcaacctgatggctcaccccgcgcccctggccgcccccagcgccgccgcctacacgtcgagcgaggcccccgccgccggcatggccgagcccgctgtcaagcagtgcagcccctgctccgccgccgtgcagagctcctccggcgccgcgctgccctacggctacttcggcagcggctactacccgtgccgcatgacccaccacaacgccatcaagtcctgcgcccagcccgcctccaccttcgccgacaagtacatggacacgtcggtctccggcgaggagttcacgtcgcgggccaaggagttcgccttctaccagggctacgcggccgggccctaccagccggtgcccggctacctggacgtgcccgtggtgcccaccatcggcggccccggcgagccgcgccacgactccctgctccccatggacagctaccagccgtgggccatcaccaacgggtggaacgggcaagtgtactgccccaaggagcagagccagccgcctcacctctggaagtccaccctcccggacgtcgtctcgcatccctcggatgcgaactcgtacagacgtgggaggaagaagcgagtgccctacacaaaggtgcagttaaaagaactcgaaagggaatacgctacaaataaattcataaccaaagacaaacggcggaggatatcggcgaccacgaatctgtcagagcgacaggtcacaatctggttccagaacagaagggtcaaagagaaaaaagtcatcaacaaattgaagacgaccagttaatggattaaccgcggagaagcggcagctcggaaggatccgaacttttttttttcttcctttctttttctttttctttttcttttttttttttttaatttttttttttttggtgttcagattaaaataattattaataataattaaaaagggaaaaaaaaaaaagacaagacaatgacgaacctcttctctcagaacaagcgatccgtagccttggaattatagcgttttttgaaaaggaaaaaaaaaaaaaagccaaaaaaaaaaaaaaagattgctgtagcgaatggttaaagctgacagtcctcctgcaatcccaggccggcagtgtgactgccaaactgtaaagcccgcatcccccgcccgagagaagcgcttgcagttcggacacaccgttttccgagcgacttgtaagtacttcggtgaccttcctgtttgagaacgctcgtcgtggccacgctgggagctggtgaacgtcaggagctcgatgcgtacacataagcttgttttcttccattgcaatccaaactgtatgttgaatgaccgctcaggtaaaccatagtgaaaaaaaaaatgtacaattactgtatgtttgaaagcaatttagtgttaaaaacaggaaacaaaaaaaaaaaaaaggaaagtaataataaacctcgaaggtactgaataaggatttcagagacatcagtaatgaaggaagctctgttggaggatctatcctgatagcaaattagaaccatcgcacgtagaggggatagaaagggaattatttgcttggagatatctgttggttttattatttttattcccaaaagatgatttcttgtcatctgtctcgttgttttattccccccccccccccttcctcccctcagaccgtacaatagatacgttgtaaaggactctgcctggtttaaacctcaatcgatctcccagaattcatactttaagtccccggaaatctgtaattgtttgactccgggtggataccaaaacaccaccattggcattgctgtgcagctacaaaataatccctccgtggaaaaaaaaaatatatatatatatatatatatatatacccgagaacttcaaactgaaatgcatttccccgcccccccccccaggagtattttgatttatataatctatattttgatctataagtaattagtcgtttctccttgtttattgtctgttatgaggccgcagtaggacgtgtagggattctttttacagcaccttttaatccaatcagttatttcaaccagcacattattttgtttttattcactataagaagctatcgtgtaaataaaagacaacaaatcagcgcactgtgaaaatgtatttgtgcaccctcgttttttgtttttttgtttttttatatatatatatatatatatttctactgaaaaaggaaaatccgagacgtgtagataggcatagtagtactaatgctgtcataataaaatagtcactgtaataaaa

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