LOCUS       NM_016355               1817 bp    mRNA    linear   PRI 06-JUN-2024
DEFINITION  Homo sapiens DEAD-box helicase 47 (DDX47), transcript variant 1,
            mRNA.
ACCESSION   NM_016355
VERSION     NM_016355.4
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 1817)
  AUTHORS   Zhu,Y., Cai,W., Zheng,Y., Zhang,W., Wang,B. and Kang,Y.
  TITLE     BIOINFORMATICS APPLICATIONS UNDER CONDITION CONTROL: HIGH
            DIAGNOSTIC VALUE OF DDX47 IN REAL MEDICAL SETTINGS
  JOURNAL   Shock 61 (1), 97-104 (2024)
   PUBMED   37553903
  REMARK    GeneRIF: BIOINFORMATICS APPLICATIONS UNDER CONDITION CONTROL: HIGH
            DIAGNOSTIC VALUE OF DDX47 IN REAL MEDICAL SETTINGS.
REFERENCE   2  (bases 1 to 1817)
  AUTHORS   Marchena-Cruz,E., Camino,L.P., Bhandari,J., Silva,S.,
            Marqueta-Gracia,J.J., Amdeen,S.A., Guillen-Mendoza,C.,
            Garcia-Rubio,M.L., Calderon-Montano,J.M., Xue,X., Luna,R. and
            Aguilera,A.
  TITLE     DDX47, MeCP2, and other functionally heterogeneous factors protect
            cells from harmful R loops
  JOURNAL   Cell Rep 42 (3), 112148 (2023)
   PUBMED   36827184
  REMARK    GeneRIF: DDX47, MeCP2, and other functionally heterogeneous factors
            protect cells from harmful R loops.
REFERENCE   3  (bases 1 to 1817)
  AUTHORS   Baltz,A.G., Munschauer,M., Schwanhausser,B., Vasile,A.,
            Murakawa,Y., Schueler,M., Youngs,N., Penfold-Brown,D., Drew,K.,
            Milek,M., Wyler,E., Bonneau,R., Selbach,M., Dieterich,C. and
            Landthaler,M.
  TITLE     The mRNA-bound proteome and its global occupancy profile on
            protein-coding transcripts
  JOURNAL   Mol Cell 46 (5), 674-690 (2012)
   PUBMED   22681889
REFERENCE   4  (bases 1 to 1817)
  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   5  (bases 1 to 1817)
  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   6  (bases 1 to 1817)
  AUTHORS   Andersen,J.S., Lam,Y.W., Leung,A.K., Ong,S.E., Lyon,C.E.,
            Lamond,A.I. and Mann,M.
  TITLE     Nucleolar proteome dynamics
  JOURNAL   Nature 433 (7021), 77-83 (2005)
   PUBMED   15635413
REFERENCE   7  (bases 1 to 1817)
  AUTHORS   Regard,J.B., Scheek,S., Borbiev,T., Lanahan,A.A., Schneider,A.,
            Demetriades,A.M., Hiemisch,H., Barnes,C.A., Verin,A.D. and
            Worley,P.F.
  TITLE     Verge: a novel vascular early response gene
  JOURNAL   J Neurosci 24 (16), 4092-4103 (2004)
   PUBMED   15102925
REFERENCE   8  (bases 1 to 1817)
  AUTHORS   Scherl,A., Coute,Y., Deon,C., Calle,A., Kindbeiter,K.,
            Sanchez,J.C., Greco,A., Hochstrasser,D. and Diaz,J.J.
  TITLE     Functional proteomic analysis of human nucleolus
  JOURNAL   Mol Biol Cell 13 (11), 4100-4109 (2002)
   PUBMED   12429849
REFERENCE   9  (bases 1 to 1817)
  AUTHORS   Doorbar,J., Elston,R.C., Napthine,S., Raj,K., Medcalf,E.,
            Jackson,D., Coleman,N., Griffin,H.M., Masterson,P., Stacey,S.,
            Mengistu,Y. and Dunlop,J.
  TITLE     The E1E4 protein of human papillomavirus type 16 associates with a
            putative RNA helicase through sequences in its C terminus
  JOURNAL   J Virol 74 (21), 10081-10095 (2000)
   PUBMED   11024137
REFERENCE   10 (bases 1 to 1817)
  AUTHORS   Simpson,J.C., Wellenreuther,R., Poustka,A., Pepperkok,R. and
            Wiemann,S.
  TITLE     Systematic subcellular localization of novel proteins identified by
            large-scale cDNA sequencing
  JOURNAL   EMBO Rep 1 (3), 287-292 (2000)
   PUBMED   11256614
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AL136666.1 and BC009379.2.
            
            On Nov 22, 2018 this sequence version replaced NM_016355.3.
            
            Summary: This gene encodes a member of the DEAD box protein family.
            DEAD box proteins, characterized by the conserved motif
            Asp-Glu-Ala-Asp (DEAD), are putative RNA helicases. They 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.
            Based on their distribution patterns, some members of this family
            are believed to be involved in embryogenesis, spermatogenesis, and
            cellular growth and division. The protein encoded by this gene can
            shuttle between the nucleus and the cytoplasm, and has an
            RNA-independent ATPase activity. Two alternatively spliced
            transcript variants encoding distinct isoforms have been found for
            this gene. [provided by RefSeq, Jul 2008].
            
            Transcript Variant: This variant (1) encodes the longer isoform
            (1).
            
            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 :: AL136666.1, SRR5189661.115172.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000358007.7/ ENSP00000350698.3
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-37                AL136666.1         5-41
            38-1815             BC009379.2         1-1778
            1816-1817           AL136666.1         1820-1821
FEATURES             Location/Qualifiers
     source          1..1817
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="12"
                     /map="12p13.1"
     gene            1..1817
                     /gene="DDX47"
                     /gene_synonym="E4-DBP; HQ0256; MSTP162; RRP3"
                     /note="DEAD-box helicase 47"
                     /db_xref="GeneID:51202"
                     /db_xref="HGNC:HGNC:18682"
                     /db_xref="MIM:615428"
     exon            1..109
                     /gene="DDX47"
                     /gene_synonym="E4-DBP; HQ0256; MSTP162; RRP3"
                     /inference="alignment:Splign:2.1.0"
     CDS             23..1390
                     /gene="DDX47"
                     /gene_synonym="E4-DBP; HQ0256; MSTP162; RRP3"
                     /EC_number="3.6.4.13"
                     /note="isoform 1 is encoded by transcript variant 1;
                     E4-DEAD box protein; probable ATP-dependent RNA helicase
                     DDX47; DEAD box polypeptide 47; DEAD box protein 47; DEAD
                     (Asp-Glu-Ala-Asp) box polypeptide 47"
                     /codon_start=1
                     /product="probable ATP-dependent RNA helicase DDX47
                     isoform 1"
                     /protein_id="NP_057439.2"
                     /db_xref="CCDS:CCDS8655.1"
                     /db_xref="GeneID:51202"
                     /db_xref="HGNC:HGNC:18682"
                     /db_xref="MIM:615428"
                     /translation="MAAPEEHDSPTEASQPIVEEEETKTFKDLGVTDVLCEACDQLGW
                     TKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRLFALVLTPTR
                     ELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENT
                     KGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRA
                     ALKNPVKCAVSSKYQTVEKLQQYYIFIPSKFKDTYLVYILNELAGNSFMIFCSTCNNT
                     QRTALLLRNLGFTAIPLHGQMSQSKRLGSLNKFKAKARSILLATDVASRGLDIPHVDV
                     VVNFDIPTHSKDYIHRVGRTARAGRSGKAITFVTQYDVELFQRIEHLIGKKLPGFPTQ
                     DDEVMMLTERVAEAQRFARMELREHGEKKKRSREDAGDNDDTEGAIGVRNKVAGGKMK
                     KRKGR"
     exon            110..203
                     /gene="DDX47"
                     /gene_synonym="E4-DBP; HQ0256; MSTP162; RRP3"
                     /inference="alignment:Splign:2.1.0"
     exon            204..392
                     /gene="DDX47"
                     /gene_synonym="E4-DBP; HQ0256; MSTP162; RRP3"
                     /inference="alignment:Splign:2.1.0"
     exon            393..464
                     /gene="DDX47"
                     /gene_synonym="E4-DBP; HQ0256; MSTP162; RRP3"
                     /inference="alignment:Splign:2.1.0"
     exon            465..583
                     /gene="DDX47"
                     /gene_synonym="E4-DBP; HQ0256; MSTP162; RRP3"
                     /inference="alignment:Splign:2.1.0"
     exon            584..655
                     /gene="DDX47"
                     /gene_synonym="E4-DBP; HQ0256; MSTP162; RRP3"
                     /inference="alignment:Splign:2.1.0"
     exon            656..772
                     /gene="DDX47"
                     /gene_synonym="E4-DBP; HQ0256; MSTP162; RRP3"
                     /inference="alignment:Splign:2.1.0"
     exon            773..919
                     /gene="DDX47"
                     /gene_synonym="E4-DBP; HQ0256; MSTP162; RRP3"
                     /inference="alignment:Splign:2.1.0"
     exon            920..1057
                     /gene="DDX47"
                     /gene_synonym="E4-DBP; HQ0256; MSTP162; RRP3"
                     /inference="alignment:Splign:2.1.0"
     exon            1058..1128
                     /gene="DDX47"
                     /gene_synonym="E4-DBP; HQ0256; MSTP162; RRP3"
                     /inference="alignment:Splign:2.1.0"
     exon            1129..1258
                     /gene="DDX47"
                     /gene_synonym="E4-DBP; HQ0256; MSTP162; RRP3"
                     /inference="alignment:Splign:2.1.0"
     exon            1259..1817
                     /gene="DDX47"
                     /gene_synonym="E4-DBP; HQ0256; MSTP162; RRP3"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1790..1795
                     /regulatory_class="polyA_signal_sequence"
                     /gene="DDX47"
                     /gene_synonym="E4-DBP; HQ0256; MSTP162; RRP3"
                     /note="hexamer: AATAAA"
     polyA_site      1817
                     /gene="DDX47"
                     /gene_synonym="E4-DBP; HQ0256; MSTP162; RRP3"
                     /note="major polyA site"
ORIGIN      
        1 acttccggag acctcacaca agatggcggc acccgaggaa cacgattctc cgaccgaagc
       61 gtcccagccg attgtggaag aggaggaaac taaaacattt aaagacctgg gtgtgacaga
      121 tgtgttgtgt gaagcttgtg accagttggg atggacaaaa cccaccaaga tccagattga
      181 agctattcct ttggccttac aaggtcgtga tatcattggg cttgcagaaa ctggctctgg
      241 aaagacaggc gcctttgctt tgcccattct aaacgcactg ctggagaccc cgcagcgttt
      301 gtttgcccta gttcttaccc cgactcggga gctggccttt cagatctcag agcagtttga
      361 agccctgggg tcctctattg gagtgcagag tgctgtgatt gtaggtggaa ttgattcaat
      421 gtctcaatct ttggcccttg caaaaaaacc acatataata atagcaactc ctggtcgact
      481 gattgaccac ttggaaaata cgaaaggttt caacttgaga gctctcaaat acttggtcat
      541 ggatgaagcc gaccgaatac tgaatatgga ttttgagaca gaggttgaca agatcctcaa
      601 agtgattcct cgagatcgga aaacattcct cttctctgcc accatgacca agaaggttca
      661 aaaacttcag cgagcagctc tgaagaatcc tgtgaaatgt gccgtttcct ctaaatacca
      721 gacagttgaa aaattacagc aatattatat ttttattccc tctaaattca aggataccta
      781 cctggtttat attctaaatg aattggctgg aaactccttt atgatattct gcagcacctg
      841 taataatacc cagagaacag ctttgctact gcgaaatctt ggcttcactg ccatccccct
      901 ccatggacaa atgagtcaga gtaagcgcct aggatccctt aataagttta aggccaaggc
      961 ccgttccatt cttctagcaa ctgacgttgc cagccgaggt ttggacatac ctcatgtaga
     1021 tgtggttgtc aactttgaca ttcctaccca ttccaaggat tacatccatc gagtaggtcg
     1081 aacagctaga gctgggcgct ccggaaaggc tattactttt gtcacacagt atgatgtgga
     1141 actcttccag cgcatagaac acttaattgg gaagaaacta ccaggttttc caacacagga
     1201 tgatgaggtt atgatgctga cagaacgcgt cgctgaagcc caaaggtttg cccgaatgga
     1261 gttaagggag catggagaaa agaagaaacg ctcgcgagag gatgctggag ataatgatga
     1321 cacagagggt gctattggtg tcaggaacaa ggtggctgga ggaaaaatga agaagcggaa
     1381 aggccgttaa tcacttttat gaaggctcga gttctgctgt tctgtaaaag agaattggag
     1441 aatgaaacct gctccaacag agatcatgag actgaaattg gtcagaattg tgtccagaat
     1501 gtgctcagct aattcagtat tcttccccat tctgggttgg agtttactgc agagtaattc
     1561 ttacagtgct gatgtcaaga ctgttactgt tcttcgactt tgattccttg ctcatgacat
     1621 gagtagggtg tgctcttctg tcacttcaca cagacctttt gcctttttta gctgcaagtc
     1681 aaggactagg ttgatgatgc ccatgacctg taattgtaaa gaagcttgga catctgcaaa
     1741 tgatatttaa accatcttgg cttgtgcttt attcaaacta atgtgaaaca ataaatttaa
     1801 atattatttt taaaaga
//
