LOCUS       XM_017352263            5400 bp    mRNA    linear   VRT 15-JUN-2017
DEFINITION  PREDICTED: Danio rerio homeobox A1a (hoxa1a), transcript variant
            X1, mRNA.
ACCESSION   XM_017352263
VERSION     XM_017352263.2
DBLINK      BioProject: PRJNA13922
KEYWORDS    RefSeq.
SOURCE      Danio rerio (zebrafish)
  ORGANISM  Danio rerio
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Actinopterygii; Neopterygii; Teleostei; Ostariophysi;
            Cypriniformes; Danionidae; Danioninae; Danio.
COMMENT     MODEL REFSEQ:  This record is predicted by automated computational
            analysis. This record is derived from a genomic sequence
            (NC_007130.7) annotated using gene prediction method: Gnomon,
            supported by mRNA and EST evidence.
            Also see:
                Documentation of NCBI's Annotation Process
            
            On Jun 15, 2017 this sequence version replaced XM_017352263.1.
            
            ##Genome-Annotation-Data-START##
            Annotation Provider         :: NCBI
            Annotation Status           :: Full annotation
            Annotation Version          :: Danio rerio Annotation Release 106
            Annotation Pipeline         :: NCBI eukaryotic genome annotation
                                           pipeline
            Annotation Software Version :: 7.4
            Annotation Method           :: Best-placed RefSeq; Gnomon
            Features Annotated          :: Gene; mRNA; CDS; ncRNA
            ##Genome-Annotation-Data-END##
FEATURES             Location/Qualifiers
     source          1..5400
                     /organism="Danio rerio"
                     /mol_type="mRNA"
                     /strain="Tuebingen"
                     /db_xref="taxon:7955"
                     /chromosome="19"
     gene            1..5400
                     /gene="hoxa1a"
                     /gene_synonym="Hox-a1; hoxa3a; id:ibd3526; z-4"
                     /note="homeobox A1a; Derived by automated computational
                     analysis using gene prediction method: Gnomon. Supporting
                     evidence includes similarity to: 1 mRNA, 3 ESTs, 9
                     Proteins, and 100% coverage of the annotated genomic
                     feature by RNAseq alignments, including 20 samples with
                     support for all annotated introns"
                     /db_xref="GeneID:58051"
                     /db_xref="ZFIN:ZDB-GENE-000823-5"
     CDS             2420..3304
                     /gene="hoxa1a"
                     /gene_synonym="Hox-a1; hoxa3a; id:ibd3526; z-4"
                     /codon_start=1
                     /product="homeobox protein Hox-A1a isoform X1"
                     /protein_id="XP_017207752.1"
                     /db_xref="GeneID:58051"
                     /db_xref="ZFIN:ZDB-GENE-000823-5"
                     /translation="

MSTFLDFSSISGGGDGGSGGSCSVRAFHGDHGLSTFQSSCAVRLNSCSGDERFMSNISSQDVINSQPQQAGSYQSPGTLSITYSAHPSYGTQSFCTGYNHYALNQDVESSVSFPQCGPLVYSGNISSTVVQHRHHRHGYSSGNVHLHGQFQYGSATYDGVPTGQTFDWMKVKRNPPKTGKAGEYGFGGQPNTVRTNFSTKQLTELEKEFHFNKYLTRARRVEIAASLQLNETQVKIWFQNRRMKQKKREKEGLLPKSLSEQKDGLEKTEDASEKSPSAPSTPSPSPTVEAYSSN"

     misc_feature    2999..3160
                     /gene="hoxa1a"
                     /gene_synonym="Hox-a1; hoxa3a; id:ibd3526; z-4"
                     /note="Region: Homeodomain; pfam00046"
                     /db_xref="CDD:459649"
ORIGIN      

tttaccaacgtgcacttatttcttcacggattaatttaccacgaaatgaaatctcctgattatcagaaggatcagtggacaaatgtaaggataaataagtttacatttataagagtaatgttgtttgcaggatatgtctgatatacgattaactgacacacttatcaaaaacttgtcgaaggtaagattttttttgccgtgagtagcgcgtatttaatgtaatgtagccttgcccactgcatgcattaaaagttcattttttatgttttgtaatttgtttatttttgttaagaatacacattatttctaagtattgggtcaagacggttttaagtaagcacataaacatttgaaaaaccattacttgtatactttcatatgcacttgctatggtatataaacacattatactaattataaaattaagcaagtgaaaatgatggaatgttgtaaacaatttaaagtatgaagaaaagtcataaacaatgtgtaaagttagctaagcttttatagtttgtgttaaaagatataaacgctgattttatgtaattacggttgatggaaaaaaaaacaggaaacataattttggagaatactaaaatataaaaagcaacctatttctttcaatttatgaaaaattgtgagctgcggaattactaaaactgtacaattaatcctaatacatttgttatcactcaaactcctaaaacttttcaaatgttgcaatttatgaagcaaaactgttcaaacgtgtctccttcgccaaagttgggctctttgtctcgtactcttttctctgcatcgtcaggaaataccgaggaggatgtttcttttcatgaaacgaactcataaatcaaagtcttctagaaaagctgacagcatccagacaatcagtgtctgtgaaaatctgcccaaatacgtatttcattcaccgcttatcaatataacgattttggattcagcgcaacccacgtggacggataataataattaatctttttattggcgttttacaccccgtcattaggattacacaaaacactcatacaacatatttcactgcacgtcctccccaatttgtcttagtctttttgctttttgtcctgattgaaataacgttacaaatgtttataatgtctttattgaagatgttttaaaatgctttttttcgtatgaataaacaaatatttaatcaactacaatagtttttatttttagatatttttccccacatctaacagagtgaacatttggccactaagtggttctacagtttttataaactatgactccatttcatttaagtacattacactttatatttatgctgttattttttcttgccttatttgtcaggcttgttgctgtaaaaaaaatagtggcataagaaatactaggccgtagtaagcttgtgtaaagcgccattttgaaaaaagaaaaaaggtataaaaatgtccaatttcctccagagggggcgcgtgtctcctctgctccacataggattgtggataaaatacatcgtcttccctgtgattattgatcagtctgtgaatactaatcacaaaatagcattcagcaaaaacagaaatcccgctaatgtatttatttcaacatgtaagttcttagttccaagtaagttccaagtccttagttccttgctgcttaatgttgacagttagcatacatagacataggctaaatagcttatagcagtaataaatatacagtgggctacagccaatgtttttatcaagtagctaagcctaacgtattaaaaaacaacaaatataactgtgctggctacaccgaaaaaataacaatacgatgagtggtagtcagtttatcatttttatacacttactaagttgacgaaagccgatacactagagcctatagctgataggatattgctacccgaattgtgaaccagaaaaagatactaactttacataatttctttgtggttttgagatcatcttacctgaagcatttctttaaaaaaaatccacacaccgagaagctgatgctgccgggacgctgtctgtgagacaacgtccctcttagcgtatctgccagcgaatctatcctttcagcagaagtaaaggtgggcctacgtaacgttgatggacaagaggtcggcatttgcataagcctggtctttaacgacaacctgtcagtgcaaggccacttaagatcaagatgagacagcacaactgatcactggctgacccagcccacgtgactgtcactggtcattcatatcactagcgcccgaacacctccaatccacgactgattgaaggaggcagaagggtgcctcggctcaacccagggtgaatggtgcgacgttaatcagttccgggcccaaagttctgtcagtgtggcaaccacgagctgagacgcccaagaagatgacacaatgagcacattcttagatttttcgtccataagtggtggtggagatggaggtagcgggggctcgtgctcagtcagggcgttccacggtgatcacggactttcaacattccaatcgtcgtgtgctgttaggttaaatagctgcagtggagatgaacggttcatgtccaatatatcgtcacaagatgtaattaactctcagccacaacaggccggctcgtaccagtcccccgggactttgtcaattacctacagcgcccatccaagttatggaactcaaagtttttgcactggatacaatcactatgccctaaatcaggacgtggaatcgtctgtgagctttccccagtgtggcccgttagtttactctggaaatatttcttccactgttgtgcagcaccgtcatcatcgtcatggttacagtagcggaaacgttcacctccatggccagttccagtacggctcagccacatatgatggcgtgcccacgggacagacatttgactggatgaaggttaaacgcaacccgccaaaaacaggaaaagctggggagtatggatttggtgggcagccaaacactgtacgcaccaatttttcgacaaaacagctgacagagcttgaaaaggagtttcatttcaataagtacttgactcgcgcaaggcgcgtggagatcgcggcttctctccaattgaatgagactcaggtgaagatatggtttcaaaatcgccgtatgaaacaaaagaagcgcgaaaaggaaggtcttttgccgaaatctttgtccgaacagaaagatggtctcgaaaaaacagaggatgcatctgaaaagtcgccctctgcaccatccacgccctctccttcaccaactgttgaggcatactcctctaattaaacagctttcacatttgttctttcaaattgtaaacaataatgcaaaattgtttgtgacttgtcttatggttatttgtacatcatgttttaacataagtggaagagtgttttagcgaccaaccgtttctaactcgaccattttgatcactcattgtttatctgtgcactatttatgttaatgtgaaataactgttaattgtcttgggcactttgtcaagcacctggatagaaagaagtggcttgtgcatttttgtgcacagtaataacaaatgctgcacttttacgcgcgtcttagtttgaacttgtaaaccacttgtcaaaatgtctacctcaagaaccgaaggaaatagtgcaatatatttaggggatgcattactagtgaatctgttaaatctttcgggaaatagtgtctgtaattgacaaattctctggacgatgcaaagtgttgttaattcttgtgttgtgagttttgcagcatacgcaattgtctgaagttgttctccggtgatgctgagttttatcagtcggaattaaagtttcctttaatttagaaatgcgttagaaaaagatcaagatacgggtgaaatcatgtgataattaaaatgtatcttataagtacaatttattcaaatactgtattacttttgatggttctaatgtctgtcaaccctcacagaaacaactaactctaaaacactgctgacaatctgtcttaaaaatttaaaccagcaatctaagcactattatttaatatttaaatatacattttgtggaatgaactgttaagtttgatttatcgattgcttgtttgcagtcttaaatccaccaataactagctctctgcctccgtaactgatatatgcgtccgcgtgtggttctttcctcagggacgaagtgatattggcacattaagcatgtttatccacgatagaagatgcgcaatgctgtcaccgttattcgcggtgacaaccctattgacctgttagtttatcgaagagaaacaaaaaacatgacgatcgattaaatcatctcaactatcaaacaagaatgagtcggtctgaccccatcagtgttgatgggatgtctgactcatgttgcagcttagtttgctttacaaagctgggagcggggaagtaggataacaatatcttgatctgaataaaataacacgggtgtcaaaataggttcctcagtcctcagttcatttccaatcctgctccaacatacataggtttcaaacaagcccgcatgactcaattagatggatcaggtgtgtttaattagggttaaagctaaactgagcatagctgaggagtttttcacctgtgcaaaaaccctactttatattctgtgtctttaacgtcttataacttcaaaggtaaagtactttgtactgatgttcatgttgtattgcaaagtattctggttgatatttagatgaaataaggttatagacgggtttagtgagtagatttaagtggtcaaaagttcaatttgagtttcttaagttttcgctaaagggtaagcagtgttattatagatgattttacataaataattacagcgtaacaagtatttttttcaataaaaaaagttttgttctatcaaaaaactgcatggaaatataagtactatgttatcttacccataaacaatcattttcacggaatcatcggcaaactataaaacacaatgcaagtttttttttcatttttattaacgtttttttctgacattttcaatacgcacgttttgacagcttataactttactttagatccacctgtgattgtgtatgaatctgatgggtacataagattttatcctaaattcgaagtgtgtttatacattggtggaaaaacaatagttgtatagaattattttgtacaataaaatacagcaaagtgctttctaggtttaagttttaataaataagttttaaaataaacattttccaattttgttttcttaattaagatttttcgtaatttttcttaagtatacggcaaacttacgaaggcattaacatgctttgcacattctgatttaatttgcccaaatgcttatgtgacaaaatccattaaaataaaaatacga

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