LOCUS       NM_028074               4028 bp    mRNA    linear   ROD 30-APR-2024
DEFINITION  Mus musculus DEAD box helicase 42 (Ddx42), transcript variant 1,
            mRNA.
ACCESSION   NM_028074
VERSION     NM_028074.4
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Mus musculus (house mouse)
  ORGANISM  Mus musculus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Mus; Mus.
REFERENCE   1  (bases 1 to 4028)
  AUTHORS   Adams,D.J., Barlas,B., McIntyre,R.E., Salguero,I., van der
            Weyden,L., Barros,A., Vicente,J.R., Karimpour,N., Haider,A.,
            Ranzani,M., Turner,G., Thompson,N.A., Harle,V., Olvera-Leon,R.,
            Robles-Espinoza,C.D., Speak,A.O., Geisler,N., Weninger,W.J.,
            Geyer,S.H., Hewinson,J., Karp,N.A., Fu,B., Yang,F., Kozik,Z.,
            Choudhary,J., Yu,L., van Ruiten,M.S., Rowland,B.D., Lelliott,C.J.,
            Del Castillo Velasco-Herrera,M., Verstraten,R., Bruckner,L.,
            Henssen,A.G., Rooimans,M.A., de Lange,J., Mohun,T.J., Arends,M.J.,
            Kentistou,K.A., Coelho,P.A., Zhao,Y., Zecchini,H., Perry,J.R.B.,
            Jackson,S.P. and Balmus,G.
  CONSRTM   Sanger Mouse Genetics Project
  TITLE     Genetic determinants of micronucleus formation in vivo
  JOURNAL   Nature 627 (8002), 130-136 (2024)
   PUBMED   38355793
REFERENCE   2  (bases 1 to 4028)
  AUTHORS   Ingham,N.J., Pearson,S.A., Vancollie,V.E., Rook,V., Lewis,M.A.,
            Chen,J., Buniello,A., Martelletti,E., Preite,L., Lam,C.C.,
            Weiss,F.D., Powis,Z., Suwannarat,P., Lelliott,C.J., Dawson,S.J.,
            White,J.K. and Steel,K.P.
  TITLE     Mouse screen reveals multiple new genes underlying mouse and human
            hearing loss
  JOURNAL   PLoS Biol 17 (4), e3000194 (2019)
   PUBMED   30973865
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 4028)
  AUTHORS   Perez-Garcia,V., Fineberg,E., Wilson,R., Murray,A., Mazzeo,C.I.,
            Tudor,C., Sienerth,A., White,J.K., Tuck,E., Ryder,E.J., Gleeson,D.,
            Siragher,E., Wardle-Jones,H., Staudt,N., Wali,N., Collins,J.,
            Geyer,S., Busch-Nentwich,E.M., Galli,A., Smith,J.C., Robertson,E.,
            Adams,D.J., Weninger,W.J., Mohun,T. and Hemberger,M.
  TITLE     Placentation defects are highly prevalent in embryonic lethal mouse
            mutants
  JOURNAL   Nature 555 (7697), 463-468 (2018)
   PUBMED   29539633
REFERENCE   4  (bases 1 to 4028)
  AUTHORS   Girard,A., Sachidanandam,R., Hannon,G.J. and Carmell,M.A.
  TITLE     A germline-specific class of small RNAs binds mammalian Piwi
            proteins
  JOURNAL   Nature 442 (7099), 199-202 (2006)
   PUBMED   16751776
REFERENCE   5  (bases 1 to 4028)
  AUTHORS   Ballif,B.A., Villen,J., Beausoleil,S.A., Schwartz,D. and Gygi,S.P.
  TITLE     Phosphoproteomic analysis of the developing mouse brain
  JOURNAL   Mol Cell Proteomics 3 (11), 1093-1101 (2004)
   PUBMED   15345747
REFERENCE   6  (bases 1 to 4028)
  AUTHORS   Stryke,D., Kawamoto,M., Huang,C.C., Johns,S.J., King,L.A.,
            Harper,C.A., Meng,E.C., Lee,R.E., Yee,A., L'Italien,L.,
            Chuang,P.T., Young,S.G., Skarnes,W.C., Babbitt,P.C. and Ferrin,T.E.
  TITLE     BayGenomics: a resource of insertional mutations in mouse embryonic
            stem cells
  JOURNAL   Nucleic Acids Res 31 (1), 278-281 (2003)
   PUBMED   12520002
REFERENCE   7  (bases 1 to 4028)
  AUTHORS   Piao,Y., Ko,N.T., Lim,M.K. and Ko,M.S.
  TITLE     Construction of long-transcript enriched cDNA libraries from
            submicrogram amounts of total RNAs by a universal PCR amplification
            method
  JOURNAL   Genome Res 11 (9), 1553-1558 (2001)
   PUBMED   11544199
REFERENCE   8  (bases 1 to 4028)
  AUTHORS   Nishiguchi,S., Joh,T., Horie,K., Zou,Z., Yasunaga,T. and Shimada,K.
  TITLE     A survey of genes expressed in undifferentiated mouse embryonal
            carcinoma F9 cells: characterization of low-abundance mRNAs
  JOURNAL   J Biochem 116 (1), 128-139 (1994)
   PUBMED   7798170
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AK049311.1, AK007805.1 and AI836088.1.
            
            On Oct 3, 2007 this sequence version replaced NM_028074.3.
            
            Transcript Variant: This variant (1) represents the longest
            transcript and encodes the longest isoform (a).
            
            ##Evidence-Data-START##
            Transcript exon combination :: AK049311.1, SRR1660813.100749.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849375, SAMN00849380
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-2822              AK049311.1         3-2824
            2823-4011           AK007805.1         1071-2259
            4012-4028           AI836088.1         1-17                c
FEATURES             Location/Qualifiers
     source          1..4028
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="11"
                     /map="11 68.89 cM"
     gene            1..4028
                     /gene="Ddx42"
                     /gene_synonym="1810047H21Rik; B430002H05Rik; RHELP; RNAHP;
                     SF3b125"
                     /note="DEAD box helicase 42"
                     /db_xref="GeneID:72047"
                     /db_xref="MGI:MGI:1919297"
     exon            1..231
                     /gene="Ddx42"
                     /gene_synonym="1810047H21Rik; B430002H05Rik; RHELP; RNAHP;
                     SF3b125"
                     /inference="alignment:Splign:2.1.0"
     exon            232..469
                     /gene="Ddx42"
                     /gene_synonym="1810047H21Rik; B430002H05Rik; RHELP; RNAHP;
                     SF3b125"
                     /inference="alignment:Splign:2.1.0"
     CDS             249..3038
                     /gene="Ddx42"
                     /gene_synonym="1810047H21Rik; B430002H05Rik; RHELP; RNAHP;
                     SF3b125"
                     /EC_number="3.6.4.13"
                     /note="isoform a is encoded by transcript variant 1; RNA
                     helicase-related protein; ATP-dependent RNA helicase
                     DDX42; DEAD box protein 42; DEAD (Asp-Glu-Ala-Asp) box
                     polypeptide 42"
                     /codon_start=1
                     /product="ATP-dependent RNA helicase DDX42 isoform a"
                     /protein_id="NP_082350.3"
                     /db_xref="CCDS:CCDS48956.1"
                     /db_xref="GeneID:72047"
                     /db_xref="MGI:MGI:1919297"
                     /translation="MNWNKGGPGTKRGFGFGGFAISAGKKEEAKLPQQSHSAFGAASS
                     SSGFGKSAPPQLPSFYKIGSKRANFDEENAYFEDEEEDSSNVDLPYIPAENSPTRQQF
                     HSKPADSDSDDDPLEAFMAEVEDQAARDMKRLEEKDKERKNVKGIRDDIEEEDDQEAY
                     FRYMAENPTAGVVQEEEEDNLEYDSDGNPIAPSKKIIDPLPPIDHSEIDYPPFEKNFY
                     NEHEEITNLTPQQLIDLRHKLNLRVSGAAPPRPGSSFAHFGFDEQLMHQIRKSEYTQP
                     TPIQCQGVPVALSGRDMIGIAKTGSGKTAAFIWPMLIHIMDQKELEPGDGPIAVIVCP
                     TRELCQQIHAECKRFGKAYNLRSVAVYGGGSMWEQAKALQEGAEIVVCTPGRLIDHVK
                     KKATNLQRVSYLVFDEADRMFDMGFEYQVRSIASHVRPDRQTLLFSATFRKKIEKLAR
                     DILIDPIRVVQGDIGEANEDVTQIVEILHSGPSKWNWLTRRLVEFTSSGSVLLFVTKK
                     ANAEELASNLKQEGHNLGLLHGDMDQSERNKVISDFKKKDIPVLVATDVAARGLDIPS
                     IKTVINYDVARDIDTHTHRIGRTGRAGEKGVAYTLLTPKDSNFAGDLVRNLEGANQHV
                     SKELLDLAMQNAWFRKSRFKGGKGKKLNIGGGGLGYRERPGLGSENSDRGNNNNVMSN
                     YEAYKPSTGAMGDRLTAMKAAFQSQYKSHFVAASLSNQKAGTSSAGASGWTSAGSLNS
                     VPTNSAQQGHNSPDNPMTSSTKNIPGFNNSGNISSAPVTYPSIGAQGVNNTASGNNSR
                     EGIGGGNGKRERYTENRGGSRHSHGDGGNRHGDGGRHGDGYRYPESGSRHTDGHRHGE
                     TRHGGSAGRHGESRGANDGRNGESRKEGFNRENKMDPKVDSSRMDKVDSKTDKTPDGF
                     AVPEPPKRKKSRWDS"
     exon            470..620
                     /gene="Ddx42"
                     /gene_synonym="1810047H21Rik; B430002H05Rik; RHELP; RNAHP;
                     SF3b125"
                     /inference="alignment:Splign:2.1.0"
     exon            621..682
                     /gene="Ddx42"
                     /gene_synonym="1810047H21Rik; B430002H05Rik; RHELP; RNAHP;
                     SF3b125"
                     /inference="alignment:Splign:2.1.0"
     exon            683..719
                     /gene="Ddx42"
                     /gene_synonym="1810047H21Rik; B430002H05Rik; RHELP; RNAHP;
                     SF3b125"
                     /inference="alignment:Splign:2.1.0"
     exon            720..869
                     /gene="Ddx42"
                     /gene_synonym="1810047H21Rik; B430002H05Rik; RHELP; RNAHP;
                     SF3b125"
                     /inference="alignment:Splign:2.1.0"
     exon            870..974
                     /gene="Ddx42"
                     /gene_synonym="1810047H21Rik; B430002H05Rik; RHELP; RNAHP;
                     SF3b125"
                     /inference="alignment:Splign:2.1.0"
     exon            975..1094
                     /gene="Ddx42"
                     /gene_synonym="1810047H21Rik; B430002H05Rik; RHELP; RNAHP;
                     SF3b125"
                     /inference="alignment:Splign:2.1.0"
     exon            1095..1271
                     /gene="Ddx42"
                     /gene_synonym="1810047H21Rik; B430002H05Rik; RHELP; RNAHP;
                     SF3b125"
                     /inference="alignment:Splign:2.1.0"
     exon            1272..1400
                     /gene="Ddx42"
                     /gene_synonym="1810047H21Rik; B430002H05Rik; RHELP; RNAHP;
                     SF3b125"
                     /inference="alignment:Splign:2.1.0"
     exon            1401..1500
                     /gene="Ddx42"
                     /gene_synonym="1810047H21Rik; B430002H05Rik; RHELP; RNAHP;
                     SF3b125"
                     /inference="alignment:Splign:2.1.0"
     exon            1501..1548
                     /gene="Ddx42"
                     /gene_synonym="1810047H21Rik; B430002H05Rik; RHELP; RNAHP;
                     SF3b125"
                     /inference="alignment:Splign:2.1.0"
     exon            1549..1646
                     /gene="Ddx42"
                     /gene_synonym="1810047H21Rik; B430002H05Rik; RHELP; RNAHP;
                     SF3b125"
                     /inference="alignment:Splign:2.1.0"
     exon            1647..1923
                     /gene="Ddx42"
                     /gene_synonym="1810047H21Rik; B430002H05Rik; RHELP; RNAHP;
                     SF3b125"
                     /inference="alignment:Splign:2.1.0"
     exon            1924..2150
                     /gene="Ddx42"
                     /gene_synonym="1810047H21Rik; B430002H05Rik; RHELP; RNAHP;
                     SF3b125"
                     /inference="alignment:Splign:2.1.0"
     exon            2151..2261
                     /gene="Ddx42"
                     /gene_synonym="1810047H21Rik; B430002H05Rik; RHELP; RNAHP;
                     SF3b125"
                     /inference="alignment:Splign:2.1.0"
     exon            2262..2363
                     /gene="Ddx42"
                     /gene_synonym="1810047H21Rik; B430002H05Rik; RHELP; RNAHP;
                     SF3b125"
                     /inference="alignment:Splign:2.1.0"
     exon            2364..4012
                     /gene="Ddx42"
                     /gene_synonym="1810047H21Rik; B430002H05Rik; RHELP; RNAHP;
                     SF3b125"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3992..3997
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Ddx42"
                     /gene_synonym="1810047H21Rik; B430002H05Rik; RHELP; RNAHP;
                     SF3b125"
                     /note="hexamer: ATTAAA"
     polyA_site      4012
                     /gene="Ddx42"
                     /gene_synonym="1810047H21Rik; B430002H05Rik; RHELP; RNAHP;
                     SF3b125"
                     /note="major polyA site"
ORIGIN      
        1 gcgcatgtca gacgctcccc ccaccctacc cccagtcagc aacgggccgt gaggcggcgg
       61 cgaagggggc ggaggaagag cgcggctgga cgcggtcccg caccgcgcgt acgcagggcc
      121 gcgggggttc tttcgcgccg actggagtag caactgcgtc tgcagccgcg gcagcgggtt
      181 tgggtgaagg gctcgccaga cgcagtgccg ctagcccggg ggacacgaga gcaccagtca
      241 ttggcatcat gaactggaat aaaggcggcc ctggaaccaa gcggggattt ggttttggag
      301 gttttgctat cagtgctggg aagaaggagg aagccaaact gccacagcag tcccatagtg
      361 cctttggggc agccagctct tcttctggat ttggaaagtc tgctccacca cagcttcctt
      421 ctttctacaa aattggatct aaacgggcca actttgatga agaaaatgcg tattttgaag
      481 atgaagaaga agactccagc aatgtagatt taccttacat tcctgctgaa aactcaccta
      541 cccgccagca gttccattcc aagcccgcag actctgacag tgatgatgac cccttagagg
      601 cattcatggc tgaagtggag gatcaggctg ctagagacat gaagagactt gaagaaaagg
      661 acaaggaaag aaaaaacgtc aagggtattc gagatgacat tgaagaggaa gatgaccaag
      721 aagcttattt tcgatacatg gcagagaacc caactgctgg ggtggttcag gaggaagaag
      781 aggacaattt ggagtatgac agtgatggaa atccaattgc accttccaaa aaaattatcg
      841 atccccttcc tcccattgat cattcggaga ttgactatcc accatttgaa aaaaattttt
      901 acaatgaaca tgaggagata accaacctca ctccacagca gttgatagac ctgcgacata
      961 agctcaacct tcgggtctct ggtgctgcac ctcccagacc aggaagtagc tttgctcatt
     1021 ttgggtttga tgaacaactt atgcaccaga ttaggaaatc tgagtacaca cagccgaccc
     1081 caatacagtg tcagggtgta cctgtagcac taagtgggag agacatgatt ggtattgcta
     1141 aaacaggcag tgggaaaact gcagccttta tttggcccat gttgattcat ataatggatc
     1201 agaaggaatt ggaaccaggt gatggaccaa ttgcagttat tgtgtgtcct actagggagc
     1261 tttgtcaaca gatccacgca gagtgtaagc ggtttgggaa agcgtataat cttcgatcag
     1321 tggccgtgta tggaggaggg agcatgtggg agcaggccaa ggcccttcag gaaggggcag
     1381 agattgttgt atgtacccca ggtcgactga ttgatcatgt gaagaaaaaa gctactaatc
     1441 ttcaaagagt ctcttacctt gtgtttgatg aagccgatcg aatgtttgac atgggatttg
     1501 agtatcaggt tcggtccata gcaagtcatg ttcgtcctga cagacaaact ctcttattca
     1561 gtgcaacttt tcgaaagaag attgaaaagt tggccagaga catcttgatt gaccctattc
     1621 gagtggtgca gggagacatt ggagaggcga atgaagatgt gacacagatt gtggagattc
     1681 tccattccgg acccagtaaa tggaactggc tgactcggcg tctggtggag tttacttcct
     1741 cggggagtgt gctcttgttt gttactaaga aagccaatgc tgaagagcta gccagtaacc
     1801 tgaagcagga gggtcataat cttggtctgc tccatgggga catggatcag agcgaaagaa
     1861 acaaggttat ttcagatttt aagaaaaagg acatccccgt cctggtggcc actgatgttg
     1921 cagcccgtgg tctggatatt ccttccatta agacagtcat taactatgat gtagcacggg
     1981 acattgatac gcacactcac aggattggcc ggacaggaag agctggtgag aagggtgtag
     2041 cctatacctt attgactcca aaggacagca attttgctgg tgaccttgta cggaacctgg
     2101 aaggagccaa ccaacatgtt tctaaggagc tcttagatct tgcaatgcag aatgcctggt
     2161 ttcggaaatc tcgcttcaaa ggagggaaag gcaaaaagct gaacattggt ggaggaggct
     2221 tgggctatag agagcggcct gggctgggct ctgagaattc ggaccgagga aataataaca
     2281 atgtaatgag caattatgaa gcctacaagc cctccacagg agccatggga gataggctca
     2341 cagcaatgaa agcagctttt cagtcccagt acaagagtca ctttgttgca gccagtttaa
     2401 gtaatcagaa ggccggaacc tcttctgcag gggcaagtgg atggactagt gcaggaagct
     2461 taaattctgt tccaactaat tcagcacagc agggccataa tagtcctgac aaccccatga
     2521 ccagttctac caagaacatc ccaggcttca acaactctgg gaatatcagt agtgccccag
     2581 tgacctaccc ttctattgga gcccaaggag tcaacaacac agcttcaggg aataacagcc
     2641 gtgaagggat tgggggtggc aatgggaaga gagagagata tactgagaac cggggtggta
     2701 gccgtcatag ccatggagat ggtggcaatc ggcatggaga tggtgggcgc catggagatg
     2761 gataccgtta tccagaaagt ggtagccgtc atactgatgg ccaccgacat ggagagacca
     2821 ggcatggagg aagtgccggc agacacggag agagccgggg tgcaaatgat ggcaggaatg
     2881 gagaaagcag gaaagaaggt tttaatcgtg aaaacaagat ggaccccaag gtggatagca
     2941 gcaggatgga caaagtggac agcaagacag ataagacacc tgatggcttt gctgttccag
     3001 agccacccaa aagaaagaaa agccgatggg atagttagag ggtatgtgaa aatcagcgtc
     3061 gtcagtcgtc tttaatttta tttttagaaa gattttggta atgaggcgtc tcagggctgg
     3121 gttggggtcc aagatataca gaccccctgc ccttggtgga gaactggaga gtggattgta
     3181 ccttcatctg gtgttcattc agaggtttcc ttgggaacct gagctggccc tggaaagcag
     3241 agagctggga agcttttgtt tgttgtgggt gagttttaag gagggtaagt agaatactta
     3301 gggagaaagg gccttttagg gcacaaaaac tcactctagg tttataatag cttatatttt
     3361 ttactaaaat gtcaccttat aaacatctat aaattggact ttttttctta gctgtggcca
     3421 ggcagtccca acttctgccc tgttagggat gcttggggag cagtggtgct ttcagatgtt
     3481 tgcagggaag atgcctgagc gctcaggttc cccagactgt ttccagccct gagacacgta
     3541 ggaaagacag ccttccagac acaggctttg aaatcctaag ccattaggac tgaaggaatg
     3601 atcatcttgg aaggattcca ggataatcca ggcctggagt actgctaaat ttaccattta
     3661 aaaccaaccc caacagtagc attcaaagtg tctatttgtt ttgttttgtt tttttaaact
     3721 tgccctaata gtagaaaaaa gtcttctgct gaaatgattt tgatttttgt tctatcttgt
     3781 ttataaaaga aaaatataca aactttgaat tttgtgattt ttgtgaaggt ttctttaaga
     3841 tgtgcattcc ctctctgctt gctcgatagt aaatgtctta ctactgggac ctgagggctg
     3901 tcgtttctac catacaagtt agttgctaca tattaaatta tggcttggaa cagtacagcc
     3961 catgatgtga aatgtgggga agtgcttgct tattaaacta tcagaaaagt taaaaaaaaa
     4021 aaaaaaaa
//
