LOCUS       NM_203499               3959 bp    mRNA    linear   PRI 20-FEB-2025
DEFINITION  Homo sapiens DEAD-box helicase 42 (DDX42), transcript variant 2,
            mRNA.
ACCESSION   NM_203499
VERSION     NM_203499.3
KEYWORDS    RefSeq; MANE Select.
SOURCE      Homo sapiens (human)
  ORGANISM  Homo sapiens
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
            Catarrhini; Hominidae; Homo.
REFERENCE   1  (bases 1 to 3959)
  AUTHORS   Khoroshkin,M., Buyan,A., Dodel,M., Navickas,A., Yu,J., Trejo,F.,
            Doty,A., Baratam,R., Zhou,S., Lee,S.B., Joshi,T., Garcia,K.,
            Choi,B., Miglani,S., Subramanyam,V., Modi,H., Carpenter,C.,
            Markett,D., Corces,M.R., Mardakheh,F.K., Kulakovskiy,I.V. and
            Goodarzi,H.
  TITLE     Systematic identification of post-transcriptional regulatory
            modules
  JOURNAL   Nat Commun 15 (1), 7872 (2024)
   PUBMED   39251607
  REMARK    Erratum:[Nat Commun. 2024 Oct 28;15(1):9277. doi:
            10.1038/s41467-024-52903-4.. PMID: 39468017]
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 3959)
  AUTHORS   Bonaventure,B. and Goujon,C.
  TITLE     [The DEAD box RNA helicase DDX42 is an intrinsic inhibitor of
            positive-strand RNA viruses]
  JOURNAL   Med Sci (Paris) 39 (4), 322-325 (2023)
   PUBMED   37094262
  REMARK    GeneRIF: [The DEAD box RNA helicase DDX42 is an intrinsic inhibitor
            of positive-strand RNA viruses].
REFERENCE   3  (bases 1 to 3959)
  AUTHORS   Yang,F., Bian,T., Zhan,X., Chen,Z., Xing,Z., Larsen,N.A., Zhang,X.
            and Shi,Y.
  TITLE     Mechanisms of the RNA helicases DDX42 and DDX46 in human U2 snRNP
            assembly
  JOURNAL   Nat Commun 14 (1), 897 (2023)
   PUBMED   36797247
  REMARK    GeneRIF: Mechanisms of the RNA helicases DDX42 and DDX46 in human
            U2 snRNP assembly.
            Publication Status: Online-Only
REFERENCE   4  (bases 1 to 3959)
  AUTHORS   Bonaventure,B., Rebendenne,A., Chaves Valadao,A.L.,
            Arnaud-Arnould,M., Gracias,S., Garcia de Gracia,F., McKellar,J.,
            Labaronne,E., Tauziet,M., Vivet-Boudou,V., Bernard,E., Briant,L.,
            Gros,N., Djilli,W., Courgnaud,V., Parrinello,H., Rialle,S.,
            Blaise,M., Lacroix,L., Lavigne,M., Paillart,J.C., Ricci,E.P.,
            Schulz,R., Jouvenet,N., Moncorge,O. and Goujon,C.
  TITLE     The DEAD box RNA helicase DDX42 is an intrinsic inhibitor of
            positive-strand RNA viruses
  JOURNAL   EMBO Rep 23 (11), e54061 (2022)
   PUBMED   36161446
  REMARK    GeneRIF: The DEAD box RNA helicase DDX42 is an intrinsic inhibitor
            of positive-strand RNA viruses.
REFERENCE   5  (bases 1 to 3959)
  AUTHORS   Zhao,B., Li,Z., Qian,R., Liu,G., Fan,M., Liang,Z., Hu,X. and Wan,Y.
  TITLE     Cancer-associated mutations in SF3B1 disrupt the interaction
            between SF3B1 and DDX42
  JOURNAL   J Biochem 172 (2), 117-126 (2022)
   PUBMED   35652295
  REMARK    GeneRIF: Cancer-associated mutations in SF3B1 disrupt the
            interaction between SF3B1 and DDX42.
REFERENCE   6  (bases 1 to 3959)
  AUTHORS   Lin,C.W., Cheng,C.W., Yang,T.C., Li,S.W., Cheng,M.H., Wan,L.,
            Lin,Y.J., Lai,C.H., Lin,W.Y. and Kao,M.C.
  TITLE     Interferon antagonist function of Japanese encephalitis virus NS4A
            and its interaction with DEAD-box RNA helicase DDX42
  JOURNAL   Virus Res 137 (1), 49-55 (2008)
   PUBMED   18588927
  REMARK    GeneRIF: expression of N-terminal DDX42 is able to overcome
            Japanese encephalitis virus-induced antagonism of IFN responses and
            so may be important for Japanese encephalitis virus pathogenesis
REFERENCE   7  (bases 1 to 3959)
  AUTHORS   Behzadnia,N., Golas,M.M., Hartmuth,K., Sander,B., Kastner,B.,
            Deckert,J., Dube,P., Will,C.L., Urlaub,H., Stark,H. and Luhrmann,R.
  TITLE     Composition and three-dimensional EM structure of double
            affinity-purified, human prespliceosomal A complexes
  JOURNAL   EMBO J 26 (6), 1737-1748 (2007)
   PUBMED   17332742
REFERENCE   8  (bases 1 to 3959)
  AUTHORS   Uhlmann-Schiffler,H., Jalal,C. and Stahl,H.
  TITLE     Ddx42p--a human DEAD box protein with RNA chaperone activities
  JOURNAL   Nucleic Acids Res 34 (1), 10-22 (2006)
   PUBMED   16397294
  REMARK    GeneRIF: Ddx42p represents the first example of a human DEAD box
            protein possessing RNA helicase, protein displacement and RNA
            annealing activities.
            Publication Status: Online-Only
REFERENCE   9  (bases 1 to 3959)
  AUTHORS   Will,C.L., Urlaub,H., Achsel,T., Gentzel,M., Wilm,M. and
            Luhrmann,R.
  TITLE     Characterization of novel SF3b and 17S U2 snRNP proteins, including
            a human Prp5p homologue and an SF3b DEAD-box protein
  JOURNAL   EMBO J 21 (18), 4978-4988 (2002)
   PUBMED   12234937
  REMARK    GeneRIF: characterization of protein associated with the human 17S
            U2 snRNP and one of its stable subunits, SF3b; may facilitate the
            assembly of the 17S U2 snRNP
REFERENCE   10 (bases 1 to 3959)
  AUTHORS   Suk,K., Kim,S., Kim,Y.H., Oh,S.H., Lee,M.K., Kim,K.W., Kim,H.D. and
            Seo,Y.S.
  TITLE     Identification of a novel human member of the DEAD box protein
            family
  JOURNAL   Biochim Biophys Acta 1501 (1), 63-69 (2000)
   PUBMED   10727850
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AC015651.18, DA440475.1,
            AB036090.1 and BC015505.1.
            
            On Nov 22, 2018 this sequence version replaced NM_203499.2.
            
            Summary: This gene encodes a member of the Asp-Glu-Ala-Asp (DEAD)
            box protein family. Members of this protein family are putative RNA
            helicases, and are implicated in a number of cellular processes
            involving alteration of RNA secondary structure such as translation
            initiation, nuclear and mitochondrial splicing, and ribosome and
            spliceosome assembly. Members of this family are believed to be
            involved in embryogenesis, spermatogenesis, and cellular growth and
            division. Two transcript variants encoding the same protein have
            been identified for this gene. [provided by RefSeq, Jul 2008].
            
            Transcript Variant: This variant (2) lacks an exon in the 5' UTR
            compared to variant 1. Both variants 1 and 2 encode the same
            protein.
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR1660803.104354.1,
                                           SRR1803612.106913.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000389924.7/ ENSP00000374574.2
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-19                AC015651.18        99982-100000        c
            20-533              DA440475.1         10-523
            534-3040            AB036090.1         311-2817
            3041-3959           BC015505.1         2803-3721
FEATURES             Location/Qualifiers
     source          1..3959
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="17"
                     /map="17q23.3"
     gene            1..3959
                     /gene="DDX42"
                     /gene_synonym="DDX42P; RHELP; RNAHP; SF3b125; SF3B8"
                     /note="DEAD-box helicase 42"
                     /db_xref="GeneID:11325"
                     /db_xref="HGNC:HGNC:18676"
                     /db_xref="MIM:613369"
     exon            1..207
                     /gene="DDX42"
                     /gene_synonym="DDX42P; RHELP; RNAHP; SF3b125; SF3B8"
                     /inference="alignment:Splign:2.1.0"
     exon            208..444
                     /gene="DDX42"
                     /gene_synonym="DDX42P; RHELP; RNAHP; SF3b125; SF3B8"
                     /inference="alignment:Splign:2.1.0"
     CDS             224..3040
                     /gene="DDX42"
                     /gene_synonym="DDX42P; RHELP; RNAHP; SF3b125; SF3B8"
                     /EC_number="3.6.4.13"
                     /note="SF3b DEAD box protein; DEAD (Asp-Glu-Ala-Asp) box
                     helicase 42; splicing factor 3B-associated 125 kDa
                     protein; DEAD (Asp-Glu-Ala-Asp) box polypeptide 42;
                     splicing factor 3b, subunit 8"
                     /codon_start=1
                     /product="ATP-dependent RNA helicase DDX42"
                     /protein_id="NP_987095.1"
                     /db_xref="CCDS:CCDS32704.1"
                     /db_xref="GeneID:11325"
                     /db_xref="HGNC:HGNC:18676"
                     /db_xref="MIM:613369"
                     /translation="MNWNKGGPGTKRGFGFGGFAISAGKKEEPKLPQQSHSAFGATSS
                     SSGFGKSAPPQLPSFYKIGSKRANFDEENAYFEDEEEDSSNVDLPYIPAENSPTRQQF
                     HSKPVDSDSDDDPLEAFMAEVEDQAARDMKRLEEKDKERKNVKGIRDDIEEEDDQEAY
                     FRYMAENPTAGVVQEEEEDNLEYDSDGNPIAPTKKIIDPLPPIDHSEIDYPPFEKNFY
                     NEHEEITNLTPQQLIDLRHKLNLRVSGAAPPRPGSSFAHFGFDEQLMHQIRKSEYTQP
                     TPIQCQGVPVALSGRDMIGIAKTGSGKTAAFIWPMLIHIMDQKELEPGDGPIAVIVCP
                     TRELCQQIHAECKRFGKAYNLRSVAVYGGGSMWEQAKALQEGAEIVVCTPGRLIDHVK
                     KKATNLQRVSYLVFDEADRMFDMGFEYQVRSIASHVRPDRQTLLFSATFRKKIEKLAR
                     DILIDPIRVVQGDIGEANEDVTQIVEILHSGPSKWNWLTRRLVEFTSSGSVLLFVTKK
                     ANAEELANNLKQEGHNLGLLHGDMDQSERNKVISDFKKKDIPVLVATDVAARGLDIPS
                     IKTVINYDVARDIDTHTHRIGRTGRAGEKGVAYTLLTPKDSNFAGDLVRNLEGANQHV
                     SKELLDLAMQNAWFRKSRFKGGKGKKLNIGGGGLGYRERPGLGSENMDRGNNNVMSNY
                     EAYKPSTGAMGDRLTAMKAAFQSQYKSHFVAASLSNQKAGSSAAGASGWTSAGSLNSV
                     PTNSAQQGHNSPDSPVTSAAKGIPGFGNTGNISGAPVTYPSAGAQGVNNTASGNNSRE
                     GTGGSNGKRERYTENRGSSRHSHGETGNRHSDSPRHGDGGRHGDGYRHPESSSRHTDG
                     HRHGENRHGGSAGRHGENRGANDGRNGESRKEAFNRESKMEPKMEPKVDSSKMDKVDS
                     KTDKTADGFAVPEPPKRKKSRWDS"
     exon            445..595
                     /gene="DDX42"
                     /gene_synonym="DDX42P; RHELP; RNAHP; SF3b125; SF3B8"
                     /inference="alignment:Splign:2.1.0"
     exon            596..657
                     /gene="DDX42"
                     /gene_synonym="DDX42P; RHELP; RNAHP; SF3b125; SF3B8"
                     /inference="alignment:Splign:2.1.0"
     exon            658..694
                     /gene="DDX42"
                     /gene_synonym="DDX42P; RHELP; RNAHP; SF3b125; SF3B8"
                     /inference="alignment:Splign:2.1.0"
     exon            695..844
                     /gene="DDX42"
                     /gene_synonym="DDX42P; RHELP; RNAHP; SF3b125; SF3B8"
                     /inference="alignment:Splign:2.1.0"
     exon            845..949
                     /gene="DDX42"
                     /gene_synonym="DDX42P; RHELP; RNAHP; SF3b125; SF3B8"
                     /inference="alignment:Splign:2.1.0"
     exon            950..1069
                     /gene="DDX42"
                     /gene_synonym="DDX42P; RHELP; RNAHP; SF3b125; SF3B8"
                     /inference="alignment:Splign:2.1.0"
     exon            1070..1246
                     /gene="DDX42"
                     /gene_synonym="DDX42P; RHELP; RNAHP; SF3b125; SF3B8"
                     /inference="alignment:Splign:2.1.0"
     exon            1247..1375
                     /gene="DDX42"
                     /gene_synonym="DDX42P; RHELP; RNAHP; SF3b125; SF3B8"
                     /inference="alignment:Splign:2.1.0"
     exon            1376..1475
                     /gene="DDX42"
                     /gene_synonym="DDX42P; RHELP; RNAHP; SF3b125; SF3B8"
                     /inference="alignment:Splign:2.1.0"
     exon            1476..1523
                     /gene="DDX42"
                     /gene_synonym="DDX42P; RHELP; RNAHP; SF3b125; SF3B8"
                     /inference="alignment:Splign:2.1.0"
     exon            1524..1621
                     /gene="DDX42"
                     /gene_synonym="DDX42P; RHELP; RNAHP; SF3b125; SF3B8"
                     /inference="alignment:Splign:2.1.0"
     exon            1622..1898
                     /gene="DDX42"
                     /gene_synonym="DDX42P; RHELP; RNAHP; SF3b125; SF3B8"
                     /inference="alignment:Splign:2.1.0"
     exon            1899..2125
                     /gene="DDX42"
                     /gene_synonym="DDX42P; RHELP; RNAHP; SF3b125; SF3B8"
                     /inference="alignment:Splign:2.1.0"
     exon            2126..2236
                     /gene="DDX42"
                     /gene_synonym="DDX42P; RHELP; RNAHP; SF3b125; SF3B8"
                     /inference="alignment:Splign:2.1.0"
     exon            2237..2335
                     /gene="DDX42"
                     /gene_synonym="DDX42P; RHELP; RNAHP; SF3b125; SF3B8"
                     /inference="alignment:Splign:2.1.0"
     exon            2336..3959
                     /gene="DDX42"
                     /gene_synonym="DDX42P; RHELP; RNAHP; SF3b125; SF3B8"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3938..3943
                     /regulatory_class="polyA_signal_sequence"
                     /gene="DDX42"
                     /gene_synonym="DDX42P; RHELP; RNAHP; SF3b125; SF3B8"
                     /note="hexamer: AGTAAA"
     polyA_site      3959
                     /gene="DDX42"
                     /gene_synonym="DDX42P; RHELP; RNAHP; SF3b125; SF3B8"
                     /note="major polyA site"
ORIGIN      
        1 gttcccctcc ccccttcagc aacgggccgt gaggcggtgg cggtggtggc ggtggcggcg
       61 gcggtggtgg tggtggcggc ggcggcggcg aagggggcgg agaggaagga gcgcggcggg
      121 accgggccgg gacagcgcgt actttgggct ccgggattcg ctccgcgccc gcggttgtag
      181 cagctgccgc tgcagccata gcagcaggtc agtcattggc accatgaact ggaataaagg
      241 tggtcctggc actaagcgag gatttggctt tggaggtttt gccatcagtg ctgggaaaaa
      301 ggaggaaccc aaactcccac agcagtccca cagtgccttt ggggcaacca gctcttcttc
      361 tggatttgga aagtcagctc caccacagct tccttctttc tacaaaattg gatctaagcg
      421 ggccaacttt gatgaagaaa atgcctattt tgaagatgag gaagaagatt ctagcaacgt
      481 tgatttacct tacattcctg ctgaaaactc accaactcgc cagcaattcc attccaagcc
      541 agtagattct gacagcgatg atgatccctt ggaggcattc atggctgaag tggaggatca
      601 ggcagctaga gacatgaaga ggcttgaaga aaaggacaag gaaagaaaaa acgtaaaggg
      661 tattcgagat gacattgaag aggaagatga ccaagaagct tattttcgat acatggcaga
      721 aaacccaact gctggtgtgg ttcaggagga agaggaagac aatctagaat atgatagtga
      781 cggaaatcca attgcaccta ccaaaaaaat cattgatcct cttcccccca ttgatcattc
      841 agagattgac tatccaccat ttgaaaaaaa cttttacaat gagcatgaag agataaccaa
      901 cctcactcca cagcagttaa tagatctccg gcataagctc aatcttcggg tctctggtgc
      961 tgcacctcct agaccaggaa gtagctttgc tcattttggg tttgacgaac aacttatgca
     1021 ccagattcgg aaatctgaat acacacagcc cactccaata cagtgccagg gtgtgcctgt
     1081 ggcattaagt ggtagagaca tgattggtat tgccaaaaca ggtagtggga aaactgcagc
     1141 cttcatttgg cccatgttga ttcatataat ggaccagaag gagttggaac caggtgatgg
     1201 accaattgca gtgattgtgt gtcctaccag ggagctttgc cagcagatcc atgcagaatg
     1261 taagcggttt ggaaaagcat ataatcttcg atcagtggcc gtatatggag gagggagtat
     1321 gtgggagcag gccaaggccc ttcaggaggg ggcagagatt gttgtgtgta ccccaggtcg
     1381 actgatagat catgtgaaaa agaaagctac caatcttcaa agagtctctt accttgtgtt
     1441 tgatgaagca gatcgaatgt ttgacatggg atttgagtac caagttcgat ccatagcaag
     1501 tcatgttcgt cctgacaggc agactctctt atttagtgca acttttcgga agaagattga
     1561 aaagttggcc agagacatcc tgatcgaccc tattcgagtg gtgcagggag atattggaga
     1621 ggcaaatgaa gatgtgacac agattgtgga gattctccat tctggaccta gtaaatggaa
     1681 ctggcttacc cggcgtctgg tagaatttac ctcttcaggg agtgtcctcc tctttgttac
     1741 taaaaaagcc aatgctgaag agctagcgaa taaccttaaa caggagggtc ataatcttgg
     1801 gctgctccat ggggatatgg atcagagtga gagaaacaag gtcatttcag actttaagaa
     1861 aaaggacatc ccagtcctgg tggccacaga tgttgcagcc cgtggtctgg acattccttc
     1921 aattaagact gtcattaact atgatgtggc acgagacatt gatacccaca cgcataggat
     1981 tggccgcaca ggaagagcgg gtgagaaagg tgtggcctat accctactca ctcccaagga
     2041 cagcaatttt gctggtgacc tggtccggaa cttggaagga gccaatcaac acgtttctaa
     2101 ggaactccta gatctggcaa tgcagaatgc ctggtttcgg aaatctcgat tcaaaggagg
     2161 gaaaggaaaa aagctgaaca ttggtggagg aggcctaggc tacagggagc ggcctggcct
     2221 gggctctgag aacatggatc gaggaaataa caatgtaatg agcaattatg aggcctacaa
     2281 gccttccaca ggagctatgg gagatcgact aacggcaatg aaagcagctt tccagtcaca
     2341 gtacaagagt cactttgttg cagccagttt aagtaatcag aaggctggaa gttctgctgc
     2401 tggggcaagt gggtggacta gtgcagggag cttgaattct gttccaacta actcagcaca
     2461 acagggccat aacagtcctg acagccccgt caccagtgcc gccaagggca tcccaggctt
     2521 tggcaatact ggcaacatca gtggtgcccc tgtgacctac ccgtctgccg gagcccaagg
     2581 agtcaacaac acagcttcag ggaataacag ccgagaaggg actgggggca gcaacgggaa
     2641 aagagagaga tatactgaga accggggcag cagccgtcac agtcacggag agactggcaa
     2701 tcggcatagc gatagtccac gtcacggaga tggtggtcgc catggagatg gataccgcca
     2761 tccagaaagc agcagccgtc atactgatgg ccatcggcac ggggagaaca gacatggagg
     2821 aagcgcaggc cggcatgggg agaaccgggg tgcaaatgat ggtcggaatg gggaaagcag
     2881 gaaagaagct tttaatcgtg agagcaagat ggagcccaag atggaaccca aagtggacag
     2941 cagcaagatg gacaaggtgg acagcaagac agataagaca gctgacggct ttgctgtccc
     3001 agagccgcct aaacgcaaga aaagtcgatg ggacagttag aggggatgtg ctaaagcgtg
     3061 aaatcagttg tccttaattt ttagaaagat tttggtaact aggtgtctca gggctgggtt
     3121 ggggtccaaa gtgtaaggac cccctgccct tagtggagag ctggagcttg gagacattac
     3181 cccttcatca gaaggaattt tcggatgttt tcttgggaag ctgttttggt ccttggaagc
     3241 agtgagagct gggaagcttc ttttggctct aggtgagttg tcatgtgggt aagttgaggt
     3301 tatcttggga taaagggtct tctagggcac aaaactcact ctaggtttat attgtatgta
     3361 gcttatattt tttactaagg tgtcacctta taagcatcta taaattgact tctttttctt
     3421 agttgtatgg ccaggcagtc cccattttag gagttggctt ctgcaaattc aatccattga
     3481 gctaactgtt ggggagcaat ttggtagttg tagacatttg cagggaaggg agatgtctga
     3541 ttctaaatgg gagttgatgc tcaggtcccc agccaggttt gcatccagcc ctgagacatg
     3601 taggaaacac ctttcagacc caggctctga agattcccag aagccacaag gattgaaggg
     3661 aaaaggtgat cctggtaact gttccaggat tgctccaggt ttgagatggt attgctaaat
     3721 ttaaaattaa acaagaaacc caacaacagc ttttaaagtg tcttctatct cattgtattt
     3781 tttttaactt gccccaatga tagaaaagtc ttttgctgaa atgattttga tgatttttgt
     3841 ttatcgttta taaaaaggaa aagaaatata caaactttga cttttgtgac tttgtgaagg
     3901 tttctttaag atgtgcattc ctttctgctt gctctctagt aaatgtttta ctaccggga
//
