LOCUS       NM_001398193            2839 bp    mRNA    linear   VRT 25-NOV-2024
DEFINITION  Gallus gallus homeobox A3 (HOXA3), transcript variant 7, mRNA.
ACCESSION   NM_001398193
VERSION     NM_001398193.1
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 2839)
  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 2839)
  AUTHORS   Han,B., Lian,L., Li,X., Zhao,C., Qu,L., Liu,C., Song,J. and Yang,N.
  TITLE     Chicken gga-miR-130a targets HOXA3 and MDFIC and inhibits Marek's
            disease lymphoma cell proliferation and migration
  JOURNAL   Mol Biol Rep 43 (7), 667-676 (2016)
   PUBMED   27178573
  REMARK    GeneRIF: miR-130a can arrest MSB1 cell proliferation and migration,
            and target HOXA3 and MDFIC, which are both involved in the
            regulation of cell proliferation. Collectively, gga-miR-130a plays
            a critical role in the tumorigenesis associated with chicken
            Marek's disease.
REFERENCE   3  (bases 1 to 2839)
  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 2839)
  AUTHORS   Watari-Goshima,N. and Chisaka,O.
  TITLE     Chicken HOXA3 gene: its expression pattern and role in branchial
            nerve precursor cell migration
  JOURNAL   Int J Biol Sci 7 (1), 87-101 (2011)
   PUBMED   21278919
  REMARK    GeneRIF: HOXA3 function is required for the migration of
            epibranchial placode-derived cells.
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 2839)
  AUTHORS   Searcy,R.D. and Yutzey,K.E.
  TITLE     Analysis of Hox gene expression during early avian heart
            development
  JOURNAL   Dev Dyn 213 (1), 82-91 (1998)
   PUBMED   9733103
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAENSK010000037.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR13267659.242284.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA103992440, SAMEA103992527
                                           [ECO:0000348]
            ##Evidence-Data-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-209               JAENSK010000037.1  1536346-1536554     c
            210-283             JAENSK010000037.1  1534480-1534553     c
            284-551             JAENSK010000037.1  1532844-1533111     c
            552-1140            JAENSK010000037.1  1522597-1523185     c
            1141-2839           JAENSK010000037.1  1519523-1521221     c
FEATURES             Location/Qualifiers
     source          1..2839
                     /organism="Gallus gallus"
                     /mol_type="mRNA"
                     /db_xref="taxon:9031"
                     /chromosome="2"
                     /map="2"
     gene            1..2839
                     /gene="HOXA3"
                     /gene_synonym="hoxa-4"
                     /note="homeobox A3"
                     /db_xref="CGNC:49224"
                     /db_xref="GeneID:395231"
     exon            1..209
                     /gene="HOXA3"
                     /gene_synonym="hoxa-4"
                     /inference="alignment:Splign:2.1.0"
     exon            210..283
                     /gene="HOXA3"
                     /gene_synonym="hoxa-4"
                     /inference="alignment:Splign:2.1.0"
     exon            284..551
                     /gene="HOXA3"
                     /gene_synonym="hoxa-4"
                     /inference="alignment:Splign:2.1.0"
     exon            552..1140
                     /gene="HOXA3"
                     /gene_synonym="hoxa-4"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    648..650
                     /gene="HOXA3"
                     /gene_synonym="hoxa-4"
                     /note="upstream in-frame stop codon"
     CDS             669..1910
                     /gene="HOXA3"
                     /gene_synonym="hoxa-4"
                     /note="isoform a is encoded by transcript variant 7;
                     homeodomain protein HOXD-3; homeobox protein Hox-A3; homeo
                     box A3; homeobox protein Hox-D3"
                     /codon_start=1
                     /product="homeobox protein Hox-A3 isoform a"
                     /protein_id="NP_001385122.1"
                     /db_xref="CGNC:49224"
                     /db_xref="GeneID:395231"
                     /translation="

MQKATYYDSSAIYGAYPYQGANGFTYNASQQQYPPSSSLVETEYHRPACSLQSPGSAVSHHKANDISESCMRTLPSQPLQPPGLTDPQAPPQPPPAPQAQPPPPSSASPSQNASSNPAPANSTKSPALNSPTVSKQIFPWMKESRQNTKQKNSSSSSGESCAGDKSPPGQASSKRARTAYTSAQLVELEKEFHFNRYLCRPRRVEMANLLNLTERQIKIWFQNRRMKYKKDQKGKGMMTSSGGQSPSRSPVPPAAGGYLNSMHSLVNSVPYEPQSPPPFNKPHQNTYGIPASYTAPLNNCPPPQKRYTGTAAVTPEYDTHPLQGNGYGNPHIQGSPVYVGGNYVETMTNSGPSIFGLTHLSHPPSANMDYSGAGPMGNNHHHGPCDPHPTYTDLTAHHPSQGRIQEAPKLTHL"

     misc_feature    882..1061
                     /gene="HOXA3"
                     /gene_synonym="hoxa-4"
                     /note="propagated from UniProtKB/Swiss-Prot (O93353.2);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     misc_feature    1035..1412
                     /gene="HOXA3"
                     /gene_synonym="hoxa-4"
                     /note="Homeodomain-containing transcription factor
                     [Transcription]; Region: COG5576"
                     /db_xref="CDD:227863"
     misc_feature    1077..1094
                     /gene="HOXA3"
                     /gene_synonym="hoxa-4"
                     /note="propagated from UniProtKB/Swiss-Prot (O93353.2);
                     Region: Antp-type hexapeptide"
     misc_feature    1095..1199
                     /gene="HOXA3"
                     /gene_synonym="hoxa-4"
                     /note="propagated from UniProtKB/Swiss-Prot (O93353.2);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     misc_feature    1188..1358
                     /gene="HOXA3"
                     /gene_synonym="hoxa-4"
                     /note="Region: Homeodomain; pfam00046"
                     /db_xref="CDD:459649"
     misc_feature    1356..1424
                     /gene="HOXA3"
                     /gene_synonym="hoxa-4"
                     /note="propagated from UniProtKB/Swiss-Prot (O93353.2);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     misc_feature    1713..1901
                     /gene="HOXA3"
                     /gene_synonym="hoxa-4"
                     /note="Domain of unknown function (DUF4074); Region:
                     DUF4074; pfam13293"
                     /db_xref="CDD:463833"
     misc_feature    1788..1907
                     /gene="HOXA3"
                     /gene_synonym="hoxa-4"
                     /note="propagated from UniProtKB/Swiss-Prot (O93353.2);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     exon            1141..2839
                     /gene="HOXA3"
                     /gene_synonym="hoxa-4"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

gtggccgtcagtcctcactaggagtgattctctcacaagtgaaactcaactccttattactggagtttgtttttctttcttttctttttctttttttttttccttttttccttttttctttttcttttttcttttcccttaaaaaaaaccccacctgatttatcttgaaagattctaaactccttaagcaagcagtagggtctgtgttgagcgcccggcaccccgaaaagccccgctccgggcggcggcagcgctccggccccggcctcggcggcgggacgagaaccaatgtttcaggtctccaaatcatcgagctcataaagcccaatgttgaatgtacaggagcaaagtaacacatgggatggcggaggaaatctagcgcctgctacttacacgctccttcgaattcgtgtttgtaaacccgtgatcgcagtagtggagcagagaaaaccacctccaaattcgacgggggaatcatttgcagctgcggcccgggacagtgtgcagtagggaggactccccctcagccctcccgaagcgcactgagtcaggtctgcccggagcggccattggaggagcagcgccacgtgacagaggggtgccaatgttattctccaagggtgtcaagaccctgtcagtttgcgaaataaatattgggaaacaacgaaatgcaaaaagcgacctactacgacagctctgcaatctatggtgcctacccctaccaaggagcaaatggtttcacttataatgcgagtcagcagcaatatcctccatcttcgtcacttgtggaaactgagtaccaccgccccgcgtgctccctccagtcccctggcagcgccgtgtcccaccacaaggccaatgacatcagtgagagttgcatgaggactctccccagccagcctctgcagccccctggcctcaccgacccgcaggccccgccgcagccacctccagccccgcaggcacagcctccacctccatcctcggcctcaccatctcaaaatgccagcagcaaccctgccccggccaactccactaagagcccggctcttaactcgcctaccgtgtccaaacagatattcccgtggatgaaagagtctcggcaaaacacaaagcagaaaaacagcagttccagttcaggtgagagctgtgctggtgataagagccccccagggcaagcatcctctaagcgagcccgtacggcttacacaagtgcccagctggtagaactggaaaaggagttccacttcaatagatacctttgcaggccacgaagggttgagatggccaatttgctcaatctcacagaaagacagatcaaaatctggtttcagaaccgcagaatgaaatacaaaaaggatcaaaagggcaagggcatgatgacctcttcaggaggacagtccccgagcagaagccccgtccctccagctgctgggggatacctaaactctatgcattctttagtaaacagtgtcccctacgagccccagtcgcctccgccatttaataagcctcatcaaaacacctatggcatccccgcatcgtataccgctcctcttaataattgcccacctcctcaaaagagatacacggggacagcagctgtgacacctgaatacgatactcatcctcttcaaggcaacggttatgggaatccacatatacagggaagccccgtctacgtagggggcaactacgtggagaccatgaccaattccgggccttccatctttggtctaactcatctctctcatcctccctctgccaacatggactacagcggggctgggccgatgggcaacaatcaccaccacggaccttgcgacccgcacccgacatacacagaccttacagctcaccatccttctcagggaagaattcaggaagcgcccaaactcacccatctgtaggagccaggagtcactaggcggaacgcaaagccccaaccttttaaagtactcgtcccttcctctctctctcccctcccccgccatgcgccctcctcccctctctttcttctttcttttgctcattttagttcgtttcgtttcctttggtaaaagcgttttctagtttatgtgacgtagcaatatttgttgcttgaattgctctatagtttcactagtggatatttatcttcttgaactgcagcctcgtgtctcactttgggagcatacggaggctttatactttaccttctacacttttatcaaaacagggtatatgaacaaattttctataaaaggaattcttaaatgtgaatttgttcgtacatgattgatcccgcggggaagcaatttttttattgcacttcttttaaatagcgagaaagacatcagaagcgcttggacagggattccctggacagttattgatacgtgtaagtctttcaatgtgtgtatgctggtgaacattcagatttatttatattatttttttttttttgcaaacattgaataatctaagtgtttaaaattttatttatccccatttgttcatatttatatatatataaaaaaaacctgtaccctgaatattcaggaggtatttacctggccatgtgttagatggcatatcggcacgcgtaggaaatatcatttgaaagggaaccataactcctatattaaaatgatgagaactgtgatgaagacgacgcaataaaatctgggaaaagaaaaaagatcacagcttgaataattgatgcccgtaacatccagatagggggaaagaaggcgtgtgaagctgaaaggcttagatttgtgttgaaagttatacattccttgctgctcacgttctgaaaacaaaaaaaaataataaagtttttattctgaataataaa

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