LOCUS       NM_001305224            1708 bp    mRNA    linear   VRT 07-AUG-2024
DEFINITION  Gallus gallus homeobox A9 (HOXA9), mRNA.
ACCESSION   NM_001305224
VERSION     NM_001305224.2
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 1708)
  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 1708)
  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   3  (bases 1 to 1708)
  AUTHORS   Gaunt,S.J. and Strachan,L.
  TITLE     Temporal colinearity in expression of anterior Hox genes in
            developing chick embryos
  JOURNAL   Dev Dyn 207 (3), 270-280 (1996)
   PUBMED   8922526
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAENSK010000037.1.
            
            On Dec 3, 2021 this sequence version replaced NM_001305224.1.
            
            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.
            
            ##Evidence-Data-START##
            Transcript exon combination :: CR391427.1, BU253718.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA103992290, SAMEA103992323
                                           [ECO:0000348]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-589               JAENSK010000037.1  1576211-1576799     c
            590-1614            JAENSK010000037.1  1574225-1575249     c
            1615-1708           JAENSK010000037.1  1574115-1574208     c
FEATURES             Location/Qualifiers
     source          1..1708
                     /organism="Gallus gallus"
                     /mol_type="mRNA"
                     /db_xref="taxon:9031"
                     /chromosome="2"
                     /map="2"
     gene            1..1708
                     /gene="HOXA9"
                     /gene_synonym="HOXA-9"
                     /note="homeobox A9"
                     /db_xref="CGNC:13931"
                     /db_xref="GeneID:396096"
     exon            1..589
                     /gene="HOXA9"
                     /gene_synonym="HOXA-9"
                     /inference="alignment:Splign:2.1.0"
     CDS             46..828
                     /gene="HOXA9"
                     /gene_synonym="HOXA-9"
                     /codon_start=1
                     /product="homeobox protein Hox-A9"
                     /protein_id="NP_001292153.1"
                     /db_xref="CGNC:13931"
                     /db_xref="GeneID:396096"
                     /translation="

MSAPGTLSNYYVDSFLVPEGDELAAPRYAPAPLGPPPRPALAEHPELTPCSFQPKAPVFGPPWSPAHPAGASGVPAVYHPYAHHQAPVAPPDGRYMRSWLEPVPGSLSFPGLPTSRHYGIKPEPLAARRGDCTTFDTHTLSLSDYACGSPPVDRDKQSHEGAFSENNGESEANGEKPHIDPNNPAANWLHARSTRKKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQVKIWFQNRRMKMKKINKDRAKDE"

     misc_feature    46..588
                     /gene="HOXA9"
                     /gene_synonym="HOXA-9"
                     /note="Hox9 activation region; Region: Hox9_act;
                     pfam04617"
                     /db_xref="CDD:461369"
     misc_feature    628..798
                     /gene="HOXA9"
                     /gene_synonym="HOXA-9"
                     /note="Region: Homeodomain; pfam00046"
                     /db_xref="CDD:459649"
     exon            590..1708
                     /gene="HOXA9"
                     /gene_synonym="HOXA-9"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

cagccccgaattgcggcgggtcgggcgcccgcgccgcgccgcgccatgtcggcccccgggaccctcagcaactactacgtggactccttcctggtgccggagggggacgagctggcggccccccgctacgcccccgcgccgctggggccgccgccgcgcccggcgctggccgagcaccccgagctgaccccctgcagcttccagcccaaggcgcccgtcttcggccccccctggagccccgcgcaccccgccggcgccagcggcgtccccgccgtgtaccacccctacgcgcaccaccaggcgcccgtggcaccgcccgacggcaggtacatgcgttcgtggctcgagcctgtgccgggctccttgtccttccccgggttacctaccagcaggcattacggcattaaacctgaaccgctggcggccagaaggggtgactgtaccacgtttgacactcacactttgtctctgtctgattatgcttgtggttctcctccagttgatagggataagcaaagccacgaaggcgcattctctgaaaacaatggagaaagtgaggcaaacggagagaaaccacacattgatccaaataaccccgctgctaactggctccacgcgaggtccacccggaaaaagcgctgcccttacaccaagcaccagacgctggaactggagaaggagtttctgttcaatatgtatctcaccagggaccgcaggtacgaggtggccaggctcctcaacctcaccgagagacaagtgaaaatctggtttcagaacaggaggatgaaaatgaagaaaatcaacaaagaccgagcgaaggacgaatgatagggatacgggggttaaacggaaaggaaaggaaaaaaaaaaagcataaagtaaaacaaaacaacaaaaaaaaaaacaaacaaaaaagcaaacaaaaaaaataaaaacaacaacaacaacaaaaccctcccctcgagccctgccatgcaatgcgtctgggtccaggcctcatttgctttctccaggcaaattctgattccgattgtaccttgcttgtcacagtagcatggagaggccagttgccaggagaggtacagtaagacttttcattttctaataggaaagaaaaagggggcattagcacggaaacggctgttgagctatagcttgtataaatctacctgtttcttcacttaagaaagaaagaaaaagaaaaaaaaaaaggaaaaaaaaataaaaaaaaaaccagaacgacgagcaaaaactaccttttcctaatgcacaactatttacggactgtatagtttagccgacgtagttaattttattcgctctttgcgcggcggagagatctccgctctaatacttgaacactgtgttttattgtggtaattatgtttgtgactcaatttatgtgcttgggtgctgtaccggatgtaattgtgtaagctaggattcaatttgaactcaggttgtttattataaaaatggcatagagtatagctctgtagcgtattaagtcttttctgtataattagacagttaacctttgattgtaaagtatatattatatatatatctatatcccaatttaaacacacacgcaaaagtagaggggggggggggagaataaaaaagtttgtccgggatgtctgggaatgacggttctcagaagacatggaaacgagtcgttttagtatgcacagttgatatatatatc

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