LOCUS       NM_199671               1342 bp    mRNA    linear   VRT 08-OCT-2023
DEFINITION  Danio rerio small nuclear ribonucleoprotein polypeptide A (snrpa),
            mRNA.
ACCESSION   NM_199671
VERSION     NM_199671.1
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 1342)
  AUTHORS   Pasquier J, Cabau C, Nguyen T, Jouanno E, Severac D, Braasch I,
            Journot L, Pontarotti P, Klopp C, Postlethwait JH, Guiguen Y and
            Bobe J.
  TITLE     Gene evolution and gene expression after whole genome duplication
            in fish: the PhyloFish database
  JOURNAL   BMC Genomics 17, 368 (2016)
   PUBMED   27189481
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 1342)
  AUTHORS   Elkon R, Milon B, Morrison L, Shah M, Vijayakumar S, Racherla M,
            Leitch CC, Silipino L, Hadi S, Weiss-Gayet M, Barras E, Schmid CD,
            Ait-Lounis A, Barnes A, Song Y, Eisenman DJ, Eliyahu E, Frolenkov
            GI, Strome SE, Durand B, Zaghloul NA, Jones SM, Reith W and
            Hertzano R.
  TITLE     RFX transcription factors are essential for hearing in mice
  JOURNAL   Nat Commun 6, 8549 (2015)
   PUBMED   26469318
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 1342)
  AUTHORS   Li Y, Chia JM, Bartfai R, Christoffels A, Yue GH, Ding K, Ho MY,
            Hill JA, Stupka E and Orban L.
  TITLE     Comparative analysis of the testis and ovary transcriptomes in
            zebrafish by combining experimental and computational tools
  JOURNAL   Comp Funct Genomics 5 (5), 403-418 (2004)
   PUBMED   18629171
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from BC064308.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC064308.1, EH537525.1 [ECO:0000332]
            RNAseq introns              :: mixed/partial sample support
                                           SAMEA2168446, SAMEA2168447
                                           [ECO:0000350]
            ##Evidence-Data-END##
FEATURES             Location/Qualifiers
     source          1..1342
                     /organism="Danio rerio"
                     /mol_type="mRNA"
                     /db_xref="taxon:7955"
                     /chromosome="18"
                     /map="18"
     gene            1..1342
                     /gene="snrpa"
                     /gene_synonym="fc19d01; wu:fc19d01; zgc:77810"
                     /note="small nuclear ribonucleoprotein polypeptide A"
                     /db_xref="GeneID:324121"
                     /db_xref="ZFIN:ZDB-GENE-030131-2841"
     exon            1..38
                     /gene="snrpa"
                     /gene_synonym="fc19d01; wu:fc19d01; zgc:77810"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    34..36
                     /gene="snrpa"
                     /gene_synonym="fc19d01; wu:fc19d01; zgc:77810"
                     /note="upstream in-frame stop codon"
     exon            39..115
                     /gene="snrpa"
                     /gene_synonym="fc19d01; wu:fc19d01; zgc:77810"
                     /inference="alignment:Splign:2.1.0"
     CDS             43..888
                     /gene="snrpa"
                     /gene_synonym="fc19d01; wu:fc19d01; zgc:77810"
                     /codon_start=1
                     /product="U1 small nuclear ribonucleoprotein A"
                     /protein_id="NP_955965.1"
                     /db_xref="GeneID:324121"
                     /db_xref="ZFIN:ZDB-GENE-030131-2841"
                     /translation="

MAGQEMRLNHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRTLKMKGQAFVIFKEINSASNALRSMQGFPFYDKPMRIQYSKQDSDIIAKMKGTFVERDRKKEKKKPKVPEAGAGKKGGSGATPAMAGVPAAIPGMPPMSQAPRMMPMPGQPPYMPPPGMMPPPNMAPGQMPPGAMPPGGMMPGQMPGQMPQQVSENPPNHILFLTNLPEETNELMLSMLFNQFPGFKEVRLVPGRHDIAFVEFDNEVQAGAAREALQGFKITQSNAMKISFAKK"

     misc_feature    61..327
                     /gene="snrpa"
                     /gene_synonym="fc19d01; wu:fc19d01; zgc:77810"
                     /note="RNA recognition motif 1 (RRM1) found in vertebrate
                     U1 small nuclear ribonucleoprotein A (U1A); Region:
                     RRM1_U1A; cd12477"
                     /db_xref="CDD:409906"
     misc_feature    <76..660
                     /gene="snrpa"
                     /gene_synonym="fc19d01; wu:fc19d01; zgc:77810"
                     /note="polyadenylate binding protein, human types 1, 2, 3,
                     4 family; Region: PABP-1234; TIGR01628"
                     /db_xref="CDD:130689"
     misc_feature    order(79..81,85..90,97..99,172..174,178..180,184..204,
                     208..210,280..282,289..291,295..318)
                     /gene="snrpa"
                     /gene_synonym="fc19d01; wu:fc19d01; zgc:77810"
                     /note="RNA binding site [nucleotide binding]; other site"
                     /db_xref="CDD:409906"
     misc_feature    628..885
                     /gene="snrpa"
                     /gene_synonym="fc19d01; wu:fc19d01; zgc:77810"
                     /note="RNA recognition motif 2 (RRM2) found in vertebrate
                     U1 small nuclear ribonucleoprotein A (U1 snRNP A or U1-A
                     or U1A); Region: RRM2_U1A; cd12480"
                     /db_xref="CDD:409908"
     exon            116..288
                     /gene="snrpa"
                     /gene_synonym="fc19d01; wu:fc19d01; zgc:77810"
                     /inference="alignment:Splign:2.1.0"
     exon            289..462
                     /gene="snrpa"
                     /gene_synonym="fc19d01; wu:fc19d01; zgc:77810"
                     /inference="alignment:Splign:2.1.0"
     exon            463..639
                     /gene="snrpa"
                     /gene_synonym="fc19d01; wu:fc19d01; zgc:77810"
                     /inference="alignment:Splign:2.1.0"
     exon            640..728
                     /gene="snrpa"
                     /gene_synonym="fc19d01; wu:fc19d01; zgc:77810"
                     /inference="alignment:Splign:2.1.0"
     exon            729..1288
                     /gene="snrpa"
                     /gene_synonym="fc19d01; wu:fc19d01; zgc:77810"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

gtcgaatgttaaagctggttggagcttctaaaataattgatcatggcgggccaggagatgagactaaaccacaccatttacattaacaacttgaatgagaagatcaaaaaagacgagctgaaaaagtcattgtatgctatattctcacagtttggccaaatcctggacatccttgtttctcgtacactgaaaatgaagggtcaggcctttgtgatcttcaaagagatcaacagtgcttccaacgccctccgttcaatgcagggcttcccattttatgacaaacccatgcgtattcagtattcaaagcaggactctgatatcattgcaaaaatgaaaggaacatttgtggagcgagaccgtaagaaagagaagaagaagcctaaagtcccagaagctggtgccgggaagaagggaggttctggtgccacccctgctatggctggagtacctgctgctattcctggaatgccacctatgagtcaagctcctcgcatgatgccaatgcctggccagcctccctacatgcctcctcctggtatgatgcctccaccaaacatggcacccggacagatgcctccaggtgccatgccaccaggtgggatgatgccaggacaaatgccaggccagatgccacagcaggtgtcggaaaaccctcccaaccacatcctgttcctcaccaatctcccagaggagaccaacgagctcatgctgtccatgttgttcaaccagttccctggattcaaggaagttcgtcttgtccctggccgccacgatatcgcctttgtggagtttgataatgaggtgcaggccggagcagccagagaagctttgcaaggctttaagatcacacagagcaatgctatgaaaatctctttcgcaaagaaataactcgactcctgctgcttacacgcgtttagaaatgacagaccctttcagcacagttcaggggggttaaaagctgatttaacataacattcaaaagaagaaaaaaagttaaatctgtttttatttggctttctgtgttagttatatttgtactacacaatacaaggtaaggagtgatttagaaatgctaatttcattttacaccagtacttcctccctgtcatcttttatctgtctcagatgatcgactgcaagtatacaaaagatgattttgtaagtatgcaggttttgttttttatttttttatccaattatgtcttcaaaagcattgcacccagagtctggtctgcagacactgaacctggagctttgttgtttttattaaagcatgttgttttacataaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaa

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