LOCUS       NM_001139551            1078 bp    mRNA    linear   VRT 10-JAN-2022
DEFINITION  Salmo salar homeobox D12a (hoxd12a), mRNA.
ACCESSION   NM_001139551
VERSION     NM_001139551.1
KEYWORDS    RefSeq.
SOURCE      Salmo salar (Atlantic salmon)
  ORGANISM  Salmo salar
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Actinopterygii; Neopterygii; Teleostei; Protacanthopterygii;
            Salmoniformes; Salmonidae; Salmoninae; Salmo.
REFERENCE   1  (bases 1 to 1078)
  AUTHORS   Mungpakdee S, Seo HC, Angotzi AR, Dong X, Akalin A and Chourrout D.
  TITLE     Differential evolution of the 13 Atlantic salmon Hox clusters
  JOURNAL   Mol Biol Evol 25 (7), 1333-1343 (2008)
   PUBMED   18424774
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from EF695287.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: EF695287.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN02597924, SAMN02597925
                                           [ECO:0000348]
            ##Evidence-Data-END##
FEATURES             Location/Qualifiers
     source          1..1078
                     /organism="Salmo salar"
                     /mol_type="mRNA"
                     /db_xref="taxon:8030"
                     /chromosome="ssa25"
                     /map="ssa25"
     gene            1..1078
                     /gene="hoxd12a"
                     /gene_synonym="hoxd12; hoxd12aa"
                     /note="homeobox D12a"
                     /db_xref="GeneID:100194459"
     exon            1..606
                     /gene="hoxd12a"
                     /gene_synonym="hoxd12; hoxd12aa"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    24..26
                     /gene="hoxd12a"
                     /gene_synonym="hoxd12; hoxd12aa"
                     /note="upstream in-frame stop codon"
     CDS             36..845
                     /gene="hoxd12a"
                     /gene_synonym="hoxd12; hoxd12aa"
                     /note="homeobox protein HoxD12aa; homeobox D12"
                     /codon_start=1
                     /product="homeobox protein Hox-D12a"
                     /protein_id="NP_001133023.1"
                     /db_xref="GeneID:100194459"
                     /translation="

MEMCERNLLNSGYVGSLLNFPTPESLYFSNLRGNGAHLSGLHQISYNRREVCSLPWTSPSSCTSPPQSRAFSGYSPPFLSNSVPVNTNPNNHNKGPLDESNKYYFQDVNHKPEEPARHAQAFSGEHAVINFGSSKYEFSNLDRRSHNSGAQHEPNPTNQPSAAGFKQSAHSIPTIQPSSSNAGARASFSHDAPWCSSQVKPRKKRKPYTKPQLAELENEYMMNEFINRQKRKELSERLDLSDQQVKIWFQNRRMKKKRLMMRDHAFSMY"

     misc_feature    order(639..653,657..659,708..710,726..728,765..767,
                     771..776,783..788,792..800,804..809)
                     /gene="hoxd12a"
                     /gene_synonym="hoxd12; hoxd12aa"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    645..806
                     /gene="hoxd12a"
                     /gene_synonym="hoxd12; hoxd12aa"
                     /note="Homeobox domain; Region: Homeobox; pfam00046"
                     /db_xref="CDD:425441"
     misc_feature    order(645..647,654..656,774..776,783..788,795..797)
                     /gene="hoxd12a"
                     /gene_synonym="hoxd12; hoxd12aa"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     exon            607..1078
                     /gene="hoxd12a"
                     /gene_synonym="hoxd12; hoxd12aa"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

ctaaaagggttgtaagaagcgtttgagagagctccatggaaatgtgtgagcgcaatcttctgaattctggctatgttggttctctgttgaattttcctaccccggagtcgttatatttttccaacctgcggggcaatggagctcatctctctgggctgcatcagatttcctacaacaggcgagaggtgtgctcgctcccgtggacttccccaagttcgtgcacatctccgcctcagagccgcgccttcagtggctactctccgccgtttctatccaattcagtgcctgtaaatactaatcccaacaaccacaacaagggaccacttgacgagtccaataaatactactttcaggatgtaaaccacaagccagaagaacctgctagacatgcgcaggccttttctggtgaacatgcagttatcaatttcggtagctcgaaatatgaattttcgaacttggacagacggtcacataattccggtgcacaacacgaaccgaatcccaccaaccagccaagtgcagccggtttcaagcagtcggcccattcaattcccacaattcaaccatcttcaagtaacgcaggtgccagggcgtcattttcacatgatgcaccctggtgctcttcacaagtgaaacccaggaagaagagaaaaccatacacaaagccacagcttgctgaacttgagaacgaatatatgatgaacgagttcataaacaggcaaaaaaggaaggaactctctgaaagactggacttgagtgatcaacaagtcaaaatatggtttcagaaccgcagaatgaaaaagaagaggctgatgatgcgtgaccatgcattttccatgtactgagagccttgggtcttgataatgacctcgtgtggcttcggttcagacaagcgcagccacttcaaacctctgtcctgagccactgatcttggcaatatagttataggcctatcatttttattttattttaagaacgatgtattgtatattttggatggttatacaaacaactgagcttgtgaattgttgttacttttggccttgtattattagttagtgggtgatgaagaaagcat

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