LOCUS       NM_001139569             955 bp    mRNA    linear   VRT 28-JUN-2020
DEFINITION  Salmo salar homeobox A4a (hoxa4a), mRNA.
ACCESSION   NM_001139569
VERSION     NM_001139569.1
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 955)
  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 EF695316.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: EF695316.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN02863984, SAMN02864010
                                           [ECO:0000348]
            ##Evidence-Data-END##
FEATURES             Location/Qualifiers
     source          1..955
                     /organism="Salmo salar"
                     /mol_type="mRNA"
                     /db_xref="taxon:8030"
                     /chromosome="ssa14"
                     /map="ssa14"
     gene            1..955
                     /gene="hoxa4a"
                     /gene_synonym="hoxa4ab"
                     /note="homeobox A4a"
                     /db_xref="GeneID:100194479"
     exon            1..463
                     /gene="hoxa4a"
                     /gene_synonym="hoxa4ab"
                     /inference="alignment:Splign:2.0.8"
     CDS             49..789
                     /gene="hoxa4a"
                     /gene_synonym="hoxa4ab"
                     /note="homeobox protein HoxA4an"
                     /codon_start=1
                     /product="homeobox protein Hox-A4a"
                     /protein_id="NP_001133041.1"
                     /db_xref="GeneID:100194479"
                     /translation="

MIMSSYLINSNYIEPSFPPCDEYQQNGYIPAPTEYYERPKDSGFPHHDEASYPRSNYTEPSYDYGNVPSNGLDDFTDRHQAQPQPIAQNHGPRLNPVPDSGVVEDVSKACSLATESYPGAQKGKEPPVVYPWMKKVHVVNASYSGGVPKRSRTAYTRQQALELEKEFHFNRYLTRRRRVEIAHTMCLSERQVKIWFQNRRMKWKKDHKLPNTKIRSASSSSGAQQQQQIKTGTHQQLVPTPCAATL"

     misc_feature    order(493..507,511..513,562..564,580..582,619..621,
                     625..630,637..642,646..654,658..663)
                     /gene="hoxa4a"
                     /gene_synonym="hoxa4ab"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    499..660
                     /gene="hoxa4a"
                     /gene_synonym="hoxa4ab"
                     /note="Homeobox domain; Region: Homeobox; pfam00046"
                     /db_xref="CDD:425441"
     misc_feature    order(499..501,508..510,628..630,637..642,649..651)
                     /gene="hoxa4a"
                     /gene_synonym="hoxa4ab"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     exon            464..955
                     /gene="hoxa4a"
                     /gene_synonym="hoxa4ab"
                     /inference="alignment:Splign:2.0.8"
ORIGIN      

aaaaacgacagcacgataaaaattagtattgttgcacttcacaaattaatgatcatgagttcgtatttgataaactcgaactatatcgaaccttcctttcctccatgcgacgaatatcaacagaacggatacatccccgcccctactgagtactacgaacggccaaaagattcgggctttccccatcatgacgaggcgtcgtatccgaggtcaaactacacagaaccgagctacgactacggtaatgtccccagtaatggactcgacgattttaccgacaggcatcaggcacaacctcagcccattgcccagaaccatggccctcgcctcaacccagtcccagacagcggtgtggtggaggacgtcagcaaagcctgcagcctcgctactgagtcttatcccggtgcacagaagggcaaggagccgccggtggtctacccctggatgaagaaggtccatgttgtcaatgctagttacagtggaggagtgcccaagaggtcccgcactgcctacacccgccagcaggctctcgagctggagaaagaattccacttcaaccgctacctgacccggcgcaggcgcgtggagatcgcgcacactatgtgcctttccgaacgtcaggtgaagatctggttccagaacagaaggatgaagtggaagaaagatcataagctgccgaacaccaagatccgctctgcgagctcatcctcgggagcccagcagcagcagcaaatcaaaactggcacgcaccagcagctcgttcccacgccttgcgccgcgaccctatagtgatggaaccctcgcgccaaaccaacagactgagaatggcaaacagaacacagaaacggaattttgtggaccgattctcgagtatgtcccccatggtattacccccttccttggcttttgggcctgtcacctcatttcaataccatttccccgttcccctctcaac

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