LOCUS       NM_001013324            1530 bp    mRNA    linear   VRT 31-MAY-2020
DEFINITION  Danio rerio NK3 homeobox 3 (nkx3.3), mRNA.
ACCESSION   NM_001013324 XM_009307529 XM_696054
VERSION     NM_001013324.2
KEYWORDS    RefSeq.
SOURCE      Danio rerio (zebrafish)
  ORGANISM  Danio rerio
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Actinopterygii; Neopterygii; Teleostei; Ostariophysi;
            Cypriniformes; Danionidae; Danioninae; Danio.
REFERENCE   1  (bases 1 to 1530)
  AUTHORS   Gardner LD, Peck KA, Goetz GW, Linbo TL, Cameron JR, Scholz NL,
            Block BA and Incardona JP.
  TITLE     Cardiac remodeling in response to embryonic crude oil exposure
            involves unconventional NKX family members and innate immunity
            genes
  JOURNAL   J. Exp. Biol. 222 (Pt 21) (2019)
   PUBMED   31597731
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 1530)
  AUTHORS   Boskovic S, Marin-Juez R, Jasnic J, Reischauer S, El Sammak H,
            Kojic A, Faulkner G, Radojkovic D, Stainier DYR and Kojic S.
  TITLE     Characterization of zebrafish (Danio rerio) muscle ankyrin repeat
            proteins reveals their conserved response to endurance exercise
  JOURNAL   PLoS ONE 13 (9), e0204312 (2018)
   PUBMED   30252882
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 1530)
  AUTHORS   Wotton KR, Weierud FK, Juarez-Morales JL, Alvares LE, Dietrich S
            and Lewis KE.
  TITLE     Conservation of gene linkage in dispersed vertebrate NK homeobox
            clusters
  JOURNAL   Dev. Genes Evol. 219 (9-10), 481-496 (2009)
   PUBMED   20112453
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            CU929568.8.
            
            On or before May 27, 2016 this sequence version replaced
            XM_009307529.1, NM_001013324.1.
            
            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 :: BC090785.1, GDQQ01041119.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA3505370, SAMEA3505373
                                           [ECO:0000348]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-482               CU929568.8         96005-96486         c
            483-1530            CU929568.8         92133-93180         c
FEATURES             Location/Qualifiers
     source          1..1530
                     /organism="Danio rerio"
                     /mol_type="mRNA"
                     /strain="Tuebingen"
                     /db_xref="taxon:7955"
                     /chromosome="13"
                     /map="13"
     gene            1..1530
                     /gene="nkx3.3"
                     /gene_synonym="zgc:113257"
                     /note="NK3 homeobox 3"
                     /db_xref="GeneID:503746"
                     /db_xref="ZFIN:ZDB-GENE-050306-27"
     exon            1..482
                     /gene="nkx3.3"
                     /gene_synonym="zgc:113257"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    215..217
                     /gene="nkx3.3"
                     /gene_synonym="zgc:113257"
                     /note="upstream in-frame stop codon"
     CDS             218..940
                     /gene="nkx3.3"
                     /gene_synonym="zgc:113257"
                     /codon_start=1
                     /product="NK3 homeobox 3"
                     /protein_id="NP_001013342.2"
                     /db_xref="GeneID:503746"
                     /db_xref="ZFIN:ZDB-GENE-050306-27"
                     /translation="

MANNRTSFSIHNILNQGHECGKNGSFDEEYEGEKRTQDSGSSVPVNRGAESAQTRISSCVLVLESLSSDQHSCEEESTGEDNSLERRHDHEMDQQKPQSCSFEDSNPKSSKKRSRAAFSHAQVYELERRFNLQRYLSGPERADLAGALKLTETQVKIWFQNRRYKTKRRQMAAELATTPTTTLAKRVAVKVLVRNDQRQYNTEDLPSPSVPPLYQSFPYYPYMFCFQPWISGNTLSGGMY"

     misc_feature    order(551..565,569..571,620..622,638..640,677..679,
                     683..688,695..700,704..712,716..721)
                     /gene="nkx3.3"
                     /gene_synonym="zgc:113257"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    557..718
                     /gene="nkx3.3"
                     /gene_synonym="zgc:113257"
                     /note="Homeobox domain; Region: Homeobox; pfam00046"
                     /db_xref="CDD:425441"
     misc_feature    order(557..559,566..568,686..688,695..700,707..709)
                     /gene="nkx3.3"
                     /gene_synonym="zgc:113257"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     exon            483..1530
                     /gene="nkx3.3"
                     /gene_synonym="zgc:113257"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

ggaaagagaagagagggaactgatgtgcacatgacattctctgacactgcctgttgattgggtcggaagaagttttgccgcaattaaatgacacgcagagaggaaagcaattacactgcggactaatttattgtcatgaacgcgcaggagcttcccagatagacgcgcaaaactccatcgacataaaaccggcgagaaggataggtaaatgttttaaatggcgaataaccgaacctccttttccatccacaatattttaaaccaaggacatgaatgtgggaaaaacggcagttttgatgaggaatacgagggagagaaaaggacacaggactcaggctcatctgtgccggtgaaccgcggagccgaaagcgcacagacgcgcatctcttcctgcgtgctcgtgctcgagtctttatcatcagaccagcattcatgcgaggaagaatcaacaggagaagataattcactggaaaggcgacatgatcatgaaatggaccaacagaaaccccagagctgcagctttgaagacagcaaccctaaatccagcaagaaaagatctcgggcagcattttcccacgcacaggtgtacgagctagagcgacgctttaacctgcagagatatctgtctggcccagagcgagcagacctagctggagccctcaaactgaccgagactcaggtcaagatctggttccagaacaggagatacaaaaccaaacggcgacaaatggcagctgaactcgccacaactcccacaacaacccttgcaaagagagtggccgtgaaggtactagtgagaaatgaccaaaggcaatataacacagaagatctgcccagtccttctgttcctcctttataccaatcattcccttattatccctacatgttctgcttccagccatggatctcaggaaacactttaagcggtgggatgtactgatttaatggagttatgaatgattctggagaaacaaagagtcataaacaactgctattcatccagagggattaaaaatgttgaatattaaactgaacaagatgcaaataaaagaactatggggtatattgatgatcgatatcaataatttccacaaatgatcattaagccaaagcaaagacaatttattatattgttagtcatttgttgaacggtggcctataaaatgtatctggacaggtaatgcacacttaaaatttgaggcgtgtttgctttagctaacaaaatatgaaaaccaaagagtggctgcaaacaaatttggtggatctacgtgatttattgacatttgacaaagtcagaaagagcacggatgatttacaacctaacaagcttctgtttgtaaaatgttgtttggcatgacttgatatttgttcattaattcaaaggcagtcttacacttttaagtgtggctgaaaatgttagtttttttaagtgcaggtgaatcgttttatggagtgtgttttagctatagtttggggagtttttctgttattactttttcacagattaaagttgtttatttccatcaccat

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