LOCUS       NM_001414989            3528 bp    mRNA    linear   ROD 01-APR-2024
DEFINITION  Rattus norvegicus DEAD-box helicase 56 (Ddx56), transcript variant
            2, mRNA.
ACCESSION   NM_001414989 XM_006251437
VERSION     NM_001414989.1
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (bases 1 to 3528)
  AUTHORS   Martin,R., Straub,A.U., Doebele,C. and Bohnsack,M.T.
  TITLE     DExD/H-box RNA helicases in ribosome biogenesis
  JOURNAL   RNA Biol 10 (1), 4-18 (2013)
   PUBMED   22922795
  REMARK    Review article
REFERENCE   2  (bases 1 to 3528)
  AUTHORS   Castello,A., Fischer,B., Eichelbaum,K., Horos,R., Beckmann,B.M.,
            Strein,C., Davey,N.E., Humphreys,D.T., Preiss,T., Steinmetz,L.M.,
            Krijgsveld,J. and Hentze,M.W.
  TITLE     Insights into RNA biology from an atlas of mammalian mRNA-binding
            proteins
  JOURNAL   Cell 149 (6), 1393-1406 (2012)
   PUBMED   22658674
REFERENCE   3  (bases 1 to 3528)
  AUTHORS   Ghosh,D., Lippert,D., Krokhin,O., Cortens,J.P. and Wilkins,J.A.
  TITLE     Defining the membrane proteome of NK cells
  JOURNAL   J Mass Spectrom 45 (1), 1-25 (2010)
   PUBMED   19946888
REFERENCE   4  (bases 1 to 3528)
  AUTHORS   Henning,D., So,R.B., Jin,R., Lau,L.F. and Valdez,B.C.
  TITLE     Silencing of RNA helicase II/Gualpha inhibits mammalian ribosomal
            RNA production
  JOURNAL   J Biol Chem 278 (52), 52307-52314 (2003)
   PUBMED   14559904
REFERENCE   5  (bases 1 to 3528)
  AUTHORS   Westermarck,J., Weiss,C., Saffrich,R., Kast,J., Musti,A.M.,
            Wessely,M., Ansorge,W., Seraphin,B., Wilm,M., Valdez,B.C. and
            Bohmann,D.
  TITLE     The DEXD/H-box RNA helicase RHII/Gu is a co-factor for
            c-Jun-activated transcription
  JOURNAL   EMBO J 21 (3), 451-460 (2002)
   PUBMED   11823437
REFERENCE   6  (bases 1 to 3528)
  AUTHORS   Johnson,R.S., Sheng,M., Greenberg,M.E., Kolodner,R.D.,
            Papaioannou,V.E. and Spiegelman,B.M.
  TITLE     Targeting of nonexpressed genes in embryonic stem cells via
            homologous recombination
  JOURNAL   Science 245 (4923), 1234-1236 (1989)
   PUBMED   2506639
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000014.1.
            
            On Dec 20, 2022 this sequence version replaced XM_006251437.4.
            
            ##Evidence-Data-START##
            Transcript exon combination :: FQ212430.1, SRR26643429.47377.1
                                           [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA5760383,
                                           SAMEA5760386 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-83                JAXUCZ010000014.1  85336180-85336262   c
            84-245              JAXUCZ010000014.1  85335938-85336099   c
            246-406             JAXUCZ010000014.1  85335316-85335476   c
            407-577             JAXUCZ010000014.1  85334999-85335169   c
            578-668             JAXUCZ010000014.1  85334818-85334908   c
            669-913             JAXUCZ010000014.1  85334096-85334340   c
            914-1033            JAXUCZ010000014.1  85333236-85333355   c
            1034-1147           JAXUCZ010000014.1  85332542-85332655   c
            1148-1242           JAXUCZ010000014.1  85332357-85332451   c
            1243-1316           JAXUCZ010000014.1  85331581-85331654   c
            1317-1406           JAXUCZ010000014.1  85331277-85331366   c
            1407-1512           JAXUCZ010000014.1  85330402-85330507   c
            1513-1586           JAXUCZ010000014.1  85328173-85328246   c
            1587-3528           JAXUCZ010000014.1  85325942-85327883   c
FEATURES             Location/Qualifiers
     source          1..3528
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="14"
                     /map="14q21"
     gene            1..3528
                     /gene="Ddx56"
                     /gene_synonym="Ddx21; RH-II/Gu"
                     /note="DEAD-box helicase 56"
                     /db_xref="GeneID:289780"
                     /db_xref="RGD:1303195"
     exon            1..83
                     /gene="Ddx56"
                     /gene_synonym="Ddx21; RH-II/Gu"
                     /inference="alignment:Splign:2.1.0"
     CDS             24..1664
                     /gene="Ddx56"
                     /gene_synonym="Ddx21; RH-II/Gu"
                     /EC_number="3.6.4.13"
                     /note="isoform 2 is encoded by transcript variant 2; RNA
                     helicase II/Gu; probable ATP-dependent RNA helicase DDX56;
                     probable ATP-dependent RNA helicase DDX56-like; DEAD
                     (Asp-Glu-Ala-Asp) box polypeptide 56; DEAD
                     (Asp-Glu-Ala-Asp) box helicase 56"
                     /codon_start=1
                     /product="probable ATP-dependent RNA helicase DDX56
                     isoform 2"
                     /protein_id="NP_001401918.1"
                     /db_xref="GeneID:289780"
                     /db_xref="RGD:1303195"
                     /translation="MEDQEALGFEHMGLDPRLLQAVTDLGWSRPTLIQEKAIPLALEG
                     KDLLARARTGSGKTAAYAIPMLQLLLHKKATGPVMEQAVRGLVLVPTKELARQAQSMI
                     QQLASYCARDVRVANVSAAEDSASQRAVLMEKPDVVVGTPSRILNHLQQKNLKLRDSL
                     ELLVVDEADLLFSFGFEDELKSLLCHLPRIYQAFLMSATFNEDVQTLKELVLHNPVTL
                     KLQESQLPGPDQLQQFQVVCETEEDKFLLLYALLKLSLIRGKALLFVNTLERGYRLRL
                     FLEQFSIPSCVLNGELPLRSRCHIISQFNQGLYDCVIATDAEILGPQVKAKRQGRGSK
                     GDKASDPESGVARGIDFHHVSAVLNFDLPPTAEAYVHRAGRTARANNPGIVLTFVLPT
                     EQSSLGKIEELLSGEGQAPILLPYQFQMEEIESFRYRCRDAMRSVTKQAIREARLKEI
                     KEELLHSEKLKTYFEDNPRDLQLLRHDLPLHPAVVKPHLGNVPDYLVPAALRGLVHPR
                     KKRRKMPFSRKAKKVKTQNPLRDFKHRGKKPKPTAKPS"
     exon            84..245
                     /gene="Ddx56"
                     /gene_synonym="Ddx21; RH-II/Gu"
                     /inference="alignment:Splign:2.1.0"
     exon            246..406
                     /gene="Ddx56"
                     /gene_synonym="Ddx21; RH-II/Gu"
                     /inference="alignment:Splign:2.1.0"
     exon            407..577
                     /gene="Ddx56"
                     /gene_synonym="Ddx21; RH-II/Gu"
                     /inference="alignment:Splign:2.1.0"
     exon            578..668
                     /gene="Ddx56"
                     /gene_synonym="Ddx21; RH-II/Gu"
                     /inference="alignment:Splign:2.1.0"
     exon            669..913
                     /gene="Ddx56"
                     /gene_synonym="Ddx21; RH-II/Gu"
                     /inference="alignment:Splign:2.1.0"
     exon            914..1033
                     /gene="Ddx56"
                     /gene_synonym="Ddx21; RH-II/Gu"
                     /inference="alignment:Splign:2.1.0"
     exon            1034..1147
                     /gene="Ddx56"
                     /gene_synonym="Ddx21; RH-II/Gu"
                     /inference="alignment:Splign:2.1.0"
     exon            1148..1242
                     /gene="Ddx56"
                     /gene_synonym="Ddx21; RH-II/Gu"
                     /inference="alignment:Splign:2.1.0"
     exon            1243..1316
                     /gene="Ddx56"
                     /gene_synonym="Ddx21; RH-II/Gu"
                     /inference="alignment:Splign:2.1.0"
     exon            1317..1406
                     /gene="Ddx56"
                     /gene_synonym="Ddx21; RH-II/Gu"
                     /inference="alignment:Splign:2.1.0"
     exon            1407..1512
                     /gene="Ddx56"
                     /gene_synonym="Ddx21; RH-II/Gu"
                     /inference="alignment:Splign:2.1.0"
     exon            1513..1586
                     /gene="Ddx56"
                     /gene_synonym="Ddx21; RH-II/Gu"
                     /inference="alignment:Splign:2.1.0"
     exon            1587..3528
                     /gene="Ddx56"
                     /gene_synonym="Ddx21; RH-II/Gu"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 actgtcagcg tggaagtcac gccatggagg accaagaagc gctgggtttt gaacacatgg
       61 ggctggatcc ccggctcctg caggctgtca ccgacttggg ctggtcacga cctacgctaa
      121 tccaggaaaa agccatacct ctggcgctgg aggggaagga cctcctggcc cgcgcccgca
      181 caggctccgg gaagaccgca gcttatgcta ttccgatgct gcagttgctt ctccacaaga
      241 aggcgacagg tcccgtaatg gaacaagctg tgaggggcct tgtccttgtt cctactaagg
      301 agctggcaag gcaggcccag tccatgatcc agcagctggc ctcctactgt gctcgcgatg
      361 tgagagtggc taatgtctca gccgctgaag actcagcttc tcagagagct gtgttgatgg
      421 agaagcccga tgtggtggtg gggaccccat cccggatatt aaaccacttg cagcagaaaa
      481 acttgaaact ccgggactct ctggagctgc tggtagtgga cgaagctgac cttctttttt
      541 cctttggctt tgaggatgaa ctcaagagtc ttctctgtca cttgcctcgg atttaccagg
      601 cttttctcat gtcggccact ttcaatgagg atgtgcaaac cctgaaggag ctagtgctac
      661 ataacccggt tactctcaag ttacaggagt cccagctgcc ggggccagat cagctccagc
      721 agtttcaggt ggtctgtgag actgaggaag acaagttctt gctgctgtac gctctgctca
      781 agctgtccct gatccggggc aaagcgcttc tctttgtcaa cactctagag agaggttacc
      841 ggctccgtct tttcctggag cagttcagca ttccctcctg cgtgctcaat ggagaactcc
      901 cactgcgctc caggtgccac atcatctcac agttcaacca aggcttgtat gattgcgtca
      961 tagccacaga cgcagaaatc ctgggacccc aagtcaaagc caagcggcaa ggccgcgggt
     1021 ccaaaggaga caaggcatct gatcctgagt caggtgtggc ccggggcata gacttccacc
     1081 atgtgtctgc cgtcctgaat tttgaccttc ctcccactgc agaagcctat gtccaccgag
     1141 ctggcaggac agctcgagcc aacaacccag gcatagttct gaccttcgtg ctgcccacgg
     1201 aacagtcttc tttgggaaag attgaggagc ttctcagtgg agagggccag gcccccatcc
     1261 tgcttcccta ccagttccag atggaggaga ttgaaagctt tcgctatcga tgcagggatg
     1321 ccatgcgctc cgtgacgaag caggccattc gagaggcaag gctgaaggag atcaaggagg
     1381 agcttctgca ctcagagaag ctcaagacat actttgaaga caaccccagg gacctccagc
     1441 tgctacgcca tgatctgccc ttgcacccgg cagtggtgaa gcctcatttg ggcaatgtcc
     1501 ccgactactt ggttcctgcc gctcttcgtg gccttgtaca tcctcgaaag aaacggagaa
     1561 agatgccctt ctctagaaag gctaagaagg tgaagaccca gaacccactg cgtgacttca
     1621 agcacagggg gaagaagcct aaacccacag caaagccttc ttgaggttgc ctgagcctgg
     1681 ggacactgaa ttgggcatcc tggcctgtgt ggactgggct gcccactcct tgtgggcaca
     1741 ttctggtgct tgctgtttgg acagactact ttgaggaagc agctttggac accccgtcac
     1801 cttggcactg ctgggctgcc atgttgtccg ttagcagaat aaagattccg tctgctccag
     1861 gctgtgaccc tctggactgt gggaagaaac tgctttccca tatctccaga gctggcagac
     1921 ttcgaaaagg cgatcctgtc tggctctgct gctgcgtgca gtgccgccgc tggcacgcag
     1981 aggccaggtg tcctggttct gctggtccag tgtggggctg gggctgaccc agagccctgt
     2041 attgagttct actgatgcag accagctgac aggtgggctt ctcttcttct aagtcagacc
     2101 ctaagcctgc atctcaccag cacatgcatg ttcccattca gagaaaaggt gactaagccc
     2161 tgggagacga ggcgctcgtg tcccttccta ggtgaaggag cgggacagtg tgtttgtctc
     2221 agaagcacaa gtggtagtat agggagtgca cgccgtgaga cccttcctcc gtgtcccagc
     2281 ctgagccctg gctacgggag tattcattca gagcaggtga ttctccgcat cctcctacct
     2341 gacccgggta ccacagtgtg acccacggct gtctgcctgt cagttcttat caggcgtggt
     2401 aaggcgaggc tggggtgggg agagacagtg gagggtggga gaactgtcac atctggtgag
     2461 gctctggtta tagttagggt gtgtggctta gtgacaggat ctgagacttg gggtttcttt
     2521 atcttaactc caagggtctt cagaaagctg gagtctgtca cctgggaaga cagggattgt
     2581 gagtggatag atagattcca gagccttgat gtccacagtg gtatagacct gtgctcagtt
     2641 gtactgagaa aaggtcctgg agctggagat caagaacaac cctggggctg ggaaatggtt
     2701 gtagataaag cgtttgctat gcaagtagtg agggccagca tttgcagccg cagcatccaa
     2761 attaaagctg agtggcagcc cgcatctcca attccattgt gtgccttgtg ggcagggaga
     2821 gctaaaggaa cttgctagct aggctgtgtg gcccaaacag gaagctctag gttcagggaa
     2881 agaccgcgtc ctaaaagcta agatggagag caatggagga agaccctggt ctcagcctgt
     2941 gacctcgcgg gcatgacagc atgtaccagc acacgcaagc aaagagcagt cgctggcctt
     3001 ttccgtcctg ccttgtgaca gccccggaca gtcgagtgcc ccgaggtgaa tgttgcatcc
     3061 atgcctgctg ttcctgtagc attgcctgtg gttctgacac tttagttacc atggtgagga
     3121 catgtgcccc agaaccttca cccaatggag agatcgggtt tccctggtga gggttcctgt
     3181 gggacgatga agctggtata aagtcaccaa ggcgtaggac cagagctgtg gcggggagtg
     3241 tggcaaaggt cacacgcact gcacgttttc cttgcaactt agagcagccc ttgggaggcg
     3301 gttctcgtgc tctagctggg gtagctgagg cttaaaccag ctcagtggga ctggcgtgat
     3361 ggctcatcag gtaaaggtgc ttgcctataa ggtgtatgaa ctaaggtcag tttttaggac
     3421 ccctgtgtta gaaggaaaga actgattgct acaagttttc tgacctccgc atatgtgcta
     3481 tggcatttgt gcccccatgc cccataaata aattgaaaat taaagcaa
//
