LOCUS       NM_004640               1681 bp    mRNA    linear   PRI 28-AUG-2024
DEFINITION  Homo sapiens DExD-box helicase 39B (DDX39B), transcript variant 1,
            mRNA.
ACCESSION   NM_004640
VERSION     NM_004640.7
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 1681)
  AUTHORS   Banerjee,S., Nagasawa,C.K., Widen,S.G. and Garcia-Blanco,M.A.
  TITLE     Parsing the roles of DExD-box proteins DDX39A and DDX39B in
            alternative RNA splicing
  JOURNAL   Nucleic Acids Res 52 (14), 8534-8551 (2024)
   PUBMED   38801080
  REMARK    GeneRIF: Parsing the roles of DExD-box proteins DDX39A and DDX39B
            in alternative RNA splicing.
REFERENCE   2  (bases 1 to 1681)
  AUTHORS   Fujita,K.I., Yamazaki,T., Mayeda,A. and Masuda,S.
  TITLE     Terminal regions of UAP56 and URH49 are required for their distinct
            complex formation functioning to an essential role in mRNA
            processing and export
  JOURNAL   Biochem Biophys Res Commun 703, 149682 (2024)
   PUBMED   38377942
  REMARK    GeneRIF: Terminal regions of UAP56 and URH49 are required for their
            distinct complex formation functioning to an essential role in mRNA
            processing and export.
REFERENCE   3  (bases 1 to 1681)
  AUTHORS   Fujita,K.I., Ito,M., Irie,M., Harada,K., Fujiwara,N., Ikeda,Y.,
            Yoshioka,H., Yamazaki,T., Kojima,M., Mikami,B., Mayeda,A. and
            Masuda,S.
  TITLE     Structural differences between the closely related RNA helicases,
            UAP56 and URH49, fashion distinct functional apo-complexes
  JOURNAL   Nat Commun 15 (1), 455 (2024)
   PUBMED   38225262
  REMARK    GeneRIF: Structural differences between the closely related RNA
            helicases, UAP56 and URH49, fashion distinct functional
            apo-complexes.
            Publication Status: Online-Only
REFERENCE   4  (bases 1 to 1681)
  AUTHORS   Shen,H.
  TITLE     UAP56- a key player with surprisingly diverse roles in pre-mRNA
            splicing and nuclear export
  JOURNAL   BMB Rep 42 (4), 185-188 (2009)
   PUBMED   19403039
  REMARK    GeneRIF: This report summarizes recent evidence for the role of
            UAP56 in pre-mRNA splicing and nuclear export.
            Review article
REFERENCE   5  (bases 1 to 1681)
  AUTHORS   Zhao,R., Shen,J., Green,M.R., MacMorris,M. and Blumenthal,T.
  TITLE     Crystal structure of UAP56, a DExD/H-box protein involved in
            pre-mRNA splicing and mRNA export
  JOURNAL   Structure 12 (8), 1373-1381 (2004)
   PUBMED   15296731
REFERENCE   6  (bases 1 to 1681)
  AUTHORS   Allcock,R.J., Price,P., Gaudieri,S., Leelayuwat,C., Witt,C.S. and
            Dawkins,R.L.
  TITLE     Characterisation of the human central MHC gene, BAT1: genomic
            structure and expression
  JOURNAL   Exp Clin Immunogenet 16 (2), 98-106 (1999)
   PUBMED   10343160
REFERENCE   7  (bases 1 to 1681)
  AUTHORS   Fleckner,J., Zhang,M., Valcarcel,J. and Green,M.R.
  TITLE     U2AF65 recruits a novel human DEAD box protein required for the U2
            snRNP-branchpoint interaction
  JOURNAL   Genes Dev 11 (14), 1864-1872 (1997)
   PUBMED   9242493
REFERENCE   8  (bases 1 to 1681)
  AUTHORS   Peelman,L.J., Chardon,P., Nunes,M., Renard,C., Geffrotin,C.,
            Vaiman,M., Van Zeveren,A., Coppieters,W., van de Weghe,A.,
            Bouquet,Y. et al.
  TITLE     The BAT1 gene in the MHC encodes an evolutionarily conserved
            putative nuclear RNA helicase of the DEAD family
  JOURNAL   Genomics 26 (2), 210-218 (1995)
   PUBMED   7601445
REFERENCE   9  (bases 1 to 1681)
  AUTHORS   Spies,T., Bresnahan,M. and Strominger,J.L.
  TITLE     Human major histocompatibility complex contains a minimum of 19
            genes between the complement cluster and HLA-B
  JOURNAL   Proc Natl Acad Sci U S A 86 (22), 8955-8958 (1989)
   PUBMED   2813433
REFERENCE   10 (bases 1 to 1681)
  AUTHORS   Spies,T., Blanck,G., Bresnahan,M., Sands,J. and Strominger,J.L.
  TITLE     A new cluster of genes within the human major histocompatibility
            complex
  JOURNAL   Science 243 (4888), 214-217 (1989)
   PUBMED   2911734
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from DA272922.1, Z37166.1 and
            BM993499.1.
            
            On Nov 23, 2018 this sequence version replaced NM_004640.6.
            
            Summary: This gene encodes a member of the DEAD box family of
            RNA-dependent ATPases that mediate ATP hydrolysis during pre-mRNA
            splicing. The encoded protein is an essential splicing factor
            required for association of U2 small nuclear ribonucleoprotein with
            pre-mRNA, and it also plays an important role in mRNA export from
            the nucleus to the cytoplasm. This gene belongs to a cluster of
            genes localized in the vicinity of the genes encoding tumor
            necrosis factor alpha and tumor necrosis factor beta. These genes
            are all within the human major histocompatibility complex class III
            region. Mutations in this gene may be associated with rheumatoid
            arthritis. Alternative splicing results in multiple transcript
            variants. Related pseudogenes have been identified on both
            chromosomes 6 and 11. Read-through transcription also occurs
            between this gene and the upstream ATP6V1G2 (ATPase, H+
            transporting, lysosomal 13kDa, V1 subunit G2) gene. [provided by
            RefSeq, Feb 2011].
            
            Transcript Variant: This variant (1) represents the longest
            transcript. 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 :: AK222912.1, SRR5189661.39354.1
                                           [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000396172.6/ ENSP00000379475.1
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-24                DA272922.1         443-466
            25-1533             Z37166.1           7-1515
            1534-1681           BM993499.1         22-169              c
FEATURES             Location/Qualifiers
     source          1..1681
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="6"
                     /map="6p21.33"
     gene            1..1681
                     /gene="DDX39B"
                     /gene_synonym="BAT1; D6S81E; UAP56"
                     /note="DExD-box helicase 39B"
                     /db_xref="GeneID:7919"
                     /db_xref="HGNC:HGNC:13917"
                     /db_xref="MIM:142560"
     exon            1..54
                     /gene="DDX39B"
                     /gene_synonym="BAT1; D6S81E; UAP56"
                     /inference="alignment:Splign:2.1.0"
     exon            55..397
                     /gene="DDX39B"
                     /gene_synonym="BAT1; D6S81E; UAP56"
                     /inference="alignment:Splign:2.1.0"
     CDS             187..1473
                     /gene="DDX39B"
                     /gene_synonym="BAT1; D6S81E; UAP56"
                     /EC_number="3.6.4.13"
                     /note="nuclear RNA helicase (DEAD family); ATP-dependent
                     RNA helicase p47; DEAD-box helicase 39B; 56 kDa
                     U2AF65-associated protein; spliceosome RNA helicase BAT1;
                     DEAD (Asp-Glu-Ala-Asp) box polypeptide 39B;
                     HLA-B-associated transcript 1 protein"
                     /codon_start=1
                     /product="spliceosome RNA helicase DDX39B"
                     /protein_id="NP_004631.1"
                     /db_xref="CCDS:CCDS4697.1"
                     /db_xref="GeneID:7919"
                     /db_xref="HGNC:HGNC:13917"
                     /db_xref="MIM:142560"
                     /translation="MAENDVDNELLDYEDDEVETAAGGDGAEAPAKKDVKGSYVSIHS
                     SGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLA
                     TLQQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEV
                     LKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMT
                     PHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNR
                     KLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFK
                     DFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVS
                     DENDAKILNDVQDRFEVNISELPDEIDISSYIEQTR"
     exon            398..525
                     /gene="DDX39B"
                     /gene_synonym="BAT1; D6S81E; UAP56"
                     /inference="alignment:Splign:2.1.0"
     exon            526..618
                     /gene="DDX39B"
                     /gene_synonym="BAT1; D6S81E; UAP56"
                     /inference="alignment:Splign:2.1.0"
     exon            619..802
                     /gene="DDX39B"
                     /gene_synonym="BAT1; D6S81E; UAP56"
                     /inference="alignment:Splign:2.1.0"
     exon            803..921
                     /gene="DDX39B"
                     /gene_synonym="BAT1; D6S81E; UAP56"
                     /inference="alignment:Splign:2.1.0"
     exon            922..1053
                     /gene="DDX39B"
                     /gene_synonym="BAT1; D6S81E; UAP56"
                     /inference="alignment:Splign:2.1.0"
     exon            1054..1163
                     /gene="DDX39B"
                     /gene_synonym="BAT1; D6S81E; UAP56"
                     /inference="alignment:Splign:2.1.0"
     exon            1164..1308
                     /gene="DDX39B"
                     /gene_synonym="BAT1; D6S81E; UAP56"
                     /inference="alignment:Splign:2.1.0"
     exon            1309..1456
                     /gene="DDX39B"
                     /gene_synonym="BAT1; D6S81E; UAP56"
                     /inference="alignment:Splign:2.1.0"
     exon            1457..1681
                     /gene="DDX39B"
                     /gene_synonym="BAT1; D6S81E; UAP56"
                     /inference="alignment:Splign:2.1.0"
     polyA_site      1659
                     /gene="DDX39B"
                     /gene_synonym="BAT1; D6S81E; UAP56"
ORIGIN      
        1 agatttccct ccttcgtcgc tgttgctgcc gccatacgcg ctctccctgt ttagctcttc
       61 tgttagaaat agtatctttg ttttcctttg ctgttcctca atcccctact cttcacccct
      121 tgttttcacc tattttgcga gaacccatcc agatccccct tcccttcttc ccctgccggc
      181 ccagttatgg cagagaacga tgtggacaat gagctcttgg actatgaaga tgatgaggtg
      241 gagacagcag ctgggggaga tggggctgag gcccctgcca agaaggatgt caagggctcc
      301 tatgtctcca tccacagctc tggctttcgt gacttcctgc tcaagccaga gttgctccgg
      361 gccattgtcg actgtggctt tgagcatccg tcagaagtcc agcatgagtg catccctcag
      421 gccattctgg gaatggatgt cctgtgccag gccaagtcgg gcatgggaaa gacagcagtg
      481 tttgtcttgg ccacactgca acagctggag ccagttactg ggcaggtgtc tgtactggtg
      541 atgtgtcaca ctcgggagtt ggcttttcag atcagcaagg aatatgagcg cttctctaaa
      601 tacatgccca atgtcaaggt tgctgttttt tttggtggtc tgtctatcaa gaaggatgaa
      661 gaggtgctga agaagaactg cccgcatatc gtcgtgggga ctccaggccg tatcctagcc
      721 ctggctcgaa ataagagcct caacctcaaa cacattaaac actttatttt ggatgaatgt
      781 gataagatgc ttgaacagct cgacatgcgt cgggatgtcc aggaaatttt tcgcatgacc
      841 ccccacgaga agcaggtcat gatgttcagt gctaccttga gcaaagagat ccgtccagtc
      901 tgccgcaagt tcatgcaaga tccaatggag atcttcgtgg atgatgagac gaagttgacg
      961 ctgcatgggt tgcagcagta ctacgtgaaa ctgaaggaca acgagaagaa ccggaagctc
     1021 tttgaccttc tggatgtcct tgagttcaac caggtggtga tctttgtgaa gtctgtgcag
     1081 cggtgcattg ccttggccca gctactagtg gagcagaact tcccagccat tgccatccac
     1141 cgtgggatgc cccaggagga gaggctttct cggtatcagc agtttaaaga ttttcaacga
     1201 cgaattcttg tggctaccaa cctatttggc cgaggcatgg acatcgagcg ggtgaacatt
     1261 gcttttaatt atgacatgcc tgaggattct gacacctacc tgcatcgggt ggccagagca
     1321 ggccggtttg gcaccaaggg cttggctatc acatttgtgt ccgatgagaa tgatgccaag
     1381 atcctcaatg atgtgcagga tcgctttgag gtcaatatta gtgagctgcc tgatgagata
     1441 gacatctcct cctacattga acagacacgg tagaagactc gcccattttg gaatgtgacc
     1501 gtctgtcctt caggagagga caccagggtg ggggtgaagg agacactact gcccccaccc
     1561 ctgacagccc ccaccccatg gcttccatct tttgcatcac caccactcct gaacccccat
     1621 ttctgatttg tcagaatttt tttttaacaa aactaaaaat gaaacacatg tgtctgtggt
     1681 a
//
