LOCUS       NM_002904               1445 bp    mRNA    linear   PRI 19-SEP-2024
DEFINITION  Homo sapiens negative elongation factor complex member E (NELFE),
            mRNA.
ACCESSION   NM_002904
VERSION     NM_002904.6
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 1445)
  AUTHORS   Zhang,J., Hu,Z., Chung,H.H., Tian,Y., Lau,K.W., Ser,Z., Lim,Y.T.,
            Sobota,R.M., Leong,H.F., Chen,B.J., Yeo,C.J., Tan,S.Y.X., Kang,J.,
            Tan,D.E.K., Sou,I.F., McClurg,U.L., Lakshmanan,M., Vaiyapuri,T.S.,
            Raju,A., Wong,E.S.M., Tergaonkar,V., Rajarethinam,R., Pathak,E.,
            Tam,W.L., Tan,E.Y. and Tee,W.W.
  TITLE     Dependency of NELF-E-SLUG-KAT2B epigenetic axis in breast cancer
            carcinogenesis
  JOURNAL   Nat Commun 14 (1), 2439 (2023)
   PUBMED   37117180
  REMARK    GeneRIF: Dependency of NELF-E-SLUG-KAT2B epigenetic axis in breast
            cancer carcinogenesis.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 1445)
  AUTHORS   Chignon,A., Argaud,D., Boulanger,M.C., Mkannez,G., Bon-Baret,V.,
            Li,Z., Theriault,S., Bosse,Y. and Mathieu,P.
  TITLE     Genome-wide chromatin contacts of super-enhancer-associated lncRNA
            identify LINC01013 as a regulator of fibrosis in the aortic valve
  JOURNAL   PLoS Genet 18 (1), e1010010 (2022)
   PUBMED   35041643
  REMARK    GeneRIF: Genome-wide chromatin contacts of
            super-enhancer-associated lncRNA identify LINC01013 as a regulator
            of fibrosis in the aortic valve.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 1445)
  AUTHORS   Huttlin,E.L., Bruckner,R.J., Navarrete-Perea,J., Cannon,J.R.,
            Baltier,K., Gebreab,F., Gygi,M.P., Thornock,A., Zarraga,G., Tam,S.,
            Szpyt,J., Gassaway,B.M., Panov,A., Parzen,H., Fu,S., Golbazi,A.,
            Maenpaa,E., Stricker,K., Guha Thakurta,S., Zhang,T., Rad,R.,
            Pan,J., Nusinow,D.P., Paulo,J.A., Schweppe,D.K., Vaites,L.P.,
            Harper,J.W. and Gygi,S.P.
  TITLE     Dual proteome-scale networks reveal cell-specific remodeling of the
            human interactome
  JOURNAL   Cell 184 (11), 3022-3040 (2021)
   PUBMED   33961781
REFERENCE   4  (bases 1 to 1445)
  AUTHORS   Yu,S., Li,L., Cai,H., He,B., Gao,Y. and Li,Y.
  TITLE     Overexpression of NELFE contributes to gastric cancer progression
            via Wnt/beta-catenin signaling-mediated activation of CSNK2B
            expression
  JOURNAL   J Exp Clin Cancer Res 40 (1), 54 (2021)
   PUBMED   33526068
  REMARK    GeneRIF: Overexpression of NELFE contributes to gastric cancer
            progression via Wnt/beta-catenin signaling-mediated activation of
            CSNK2B expression.
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 1445)
  AUTHORS   Bishara,L.A., Machour,F.E., Awwad,S.W. and Ayoub,N.
  TITLE     NELF complex fosters BRCA1 and RAD51 recruitment to DNA damage
            sites and modulates sensitivity to PARP inhibition
  JOURNAL   DNA Repair (Amst) 97, 103025 (2021)
   PUBMED   33248388
  REMARK    GeneRIF: NELF complex fosters BRCA1 and RAD51 recruitment to DNA
            damage sites and modulates sensitivity to PARP inhibition.
REFERENCE   6  (bases 1 to 1445)
  AUTHORS   Lee,S.G. and Song,K.
  TITLE     Genomic organization of the human DDX13 gene located between RD and
            RP1 in the class III MHC complex
  JOURNAL   Mol Cells 7 (3), 414-418 (1997)
   PUBMED   9264031
REFERENCE   7  (bases 1 to 1445)
  AUTHORS   Cheng,J., Macon,K.J. and Volanakis,J.E.
  TITLE     cDNA cloning and characterization of the protein encoded by RD, a
            gene located in the class III region of the human major
            histocompatibility complex
  JOURNAL   Biochem J 294 (Pt 2) (Pt 2), 589-593 (1993)
   PUBMED   8373374
REFERENCE   8  (bases 1 to 1445)
  AUTHORS   Surowy,C.S., Hoganson,G., Gosink,J., Strunk,K. and Spritz,R.A.
  TITLE     The human RD protein is closely related to nuclear RNA-binding
            proteins and has been highly conserved
  JOURNAL   Gene 90 (2), 299-302 (1990)
   PUBMED   2119325
REFERENCE   9  (bases 1 to 1445)
  AUTHORS   Speiser,P.W. and White,P.C.
  TITLE     Structure of the human RD gene: a highly conserved gene in the
            class III region of the major histocompatibility complex
  JOURNAL   DNA 8 (10), 745-751 (1989)
   PUBMED   2612324
REFERENCE   10 (bases 1 to 1445)
  AUTHORS   Levi-Strauss,M., Carroll,M.C., Steinmetz,M. and Meo,T.
  TITLE     A previously undetected MHC gene with an unusual periodic structure
  JOURNAL   Science 240 (4849), 201-204 (1988)
   PUBMED   3353717
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from CD579634.2, BC050617.2 and
            BU935034.1.
            
            On Nov 22, 2018 this sequence version replaced NM_002904.5.
            
            Summary: The protein encoded by this gene is part of a complex
            termed negative elongation factor (NELF) which represses RNA
            polymerase II transcript elongation. This protein bears similarity
            to nuclear RNA-binding proteins; however, it has not been
            demonstrated that this protein binds RNA. The protein contains a
            tract of alternating basic and acidic residues, largely arginine
            (R) and aspartic acid (D). The gene localizes to the major
            histocompatibility complex (MHC) class III region on chromosome 6.
            [provided by RefSeq, Jul 2008].
            
            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 :: SRR5189661.67520.1,
                                           SRR1163658.484386.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000375429.8/ ENSP00000364578.3
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-17                CD579634.2         129-145
            18-1303             BC050617.2         1-1286
            1304-1445           BU935034.1         177-318
FEATURES             Location/Qualifiers
     source          1..1445
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="6"
                     /map="6p21.33"
     gene            1..1445
                     /gene="NELFE"
                     /gene_synonym="D6S45; NELF-E; RD; RDBP; RDP"
                     /note="negative elongation factor complex member E"
                     /db_xref="GeneID:7936"
                     /db_xref="HGNC:HGNC:13974"
                     /db_xref="MIM:154040"
     exon            1..80
                     /gene="NELFE"
                     /gene_synonym="D6S45; NELF-E; RD; RDBP; RDP"
                     /inference="alignment:Splign:2.1.0"
     exon            81..163
                     /gene="NELFE"
                     /gene_synonym="D6S45; NELF-E; RD; RDBP; RDP"
                     /inference="alignment:Splign:2.1.0"
     CDS             89..1231
                     /gene="NELFE"
                     /gene_synonym="D6S45; NELF-E; RD; RDBP; RDP"
                     /note="RD RNA-binding protein; major histocompatibility
                     complex gene RD; negative elongation factor polypeptide E;
                     nuclear protein; RNA-binding protein RD"
                     /codon_start=1
                     /product="negative elongation factor E"
                     /protein_id="NP_002895.3"
                     /db_xref="CCDS:CCDS4730.1"
                     /db_xref="GeneID:7936"
                     /db_xref="HGNC:HGNC:13974"
                     /db_xref="MIM:154040"
                     /translation="MLVIPPGLSEEEEALQKKFNKLKKKKKALLALKKQSSSSTTSQG
                     GVKRSLSEQPVMDTATATEQAKQLVKSGAISAIKAETKNSGFKRSRTLEGKLKDPEKG
                     PVPTFQPFQRSISADDDLQESSRRPQRKSLYESFVSSSDRLRELGPDGEEAEGPGAGD
                     GPPRSFDWGYEERSGAHSSASPPRSRSRDRSHERNRDRDRDRERDRDRDRDRDRERDR
                     DRDRDRDRDRERDRDRERDRDRDREGPFRRSDSFPERRAPRKGNTLYVYGEDMTPTLL
                     RGAFSPFGNIIDLSMDPPRNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIARKQP
                     MLDAATGKSVWGSLAVQNSPKGCHRDKRTQIVYSDDVYKENLVDGF"
     exon            164..233
                     /gene="NELFE"
                     /gene_synonym="D6S45; NELF-E; RD; RDBP; RDP"
                     /inference="alignment:Splign:2.1.0"
     exon            234..379
                     /gene="NELFE"
                     /gene_synonym="D6S45; NELF-E; RD; RDBP; RDP"
                     /inference="alignment:Splign:2.1.0"
     exon            380..454
                     /gene="NELFE"
                     /gene_synonym="D6S45; NELF-E; RD; RDBP; RDP"
                     /inference="alignment:Splign:2.1.0"
     exon            455..492
                     /gene="NELFE"
                     /gene_synonym="D6S45; NELF-E; RD; RDBP; RDP"
                     /inference="alignment:Splign:2.1.0"
     exon            493..830
                     /gene="NELFE"
                     /gene_synonym="D6S45; NELF-E; RD; RDBP; RDP"
                     /inference="alignment:Splign:2.1.0"
     exon            831..975
                     /gene="NELFE"
                     /gene_synonym="D6S45; NELF-E; RD; RDBP; RDP"
                     /inference="alignment:Splign:2.1.0"
     exon            976..1030
                     /gene="NELFE"
                     /gene_synonym="D6S45; NELF-E; RD; RDBP; RDP"
                     /inference="alignment:Splign:2.1.0"
     exon            1031..1133
                     /gene="NELFE"
                     /gene_synonym="D6S45; NELF-E; RD; RDBP; RDP"
                     /inference="alignment:Splign:2.1.0"
     exon            1134..1445
                     /gene="NELFE"
                     /gene_synonym="D6S45; NELF-E; RD; RDBP; RDP"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1280..1285
                     /regulatory_class="polyA_signal_sequence"
                     /gene="NELFE"
                     /gene_synonym="D6S45; NELF-E; RD; RDBP; RDP"
                     /note="hexamer: AGTAAA"
     polyA_site      1304
                     /gene="NELFE"
                     /gene_synonym="D6S45; NELF-E; RD; RDBP; RDP"
                     /note="major polyA site"
     polyA_site      1445
                     /gene="NELFE"
                     /gene_synonym="D6S45; NELF-E; RD; RDBP; RDP"
ORIGIN      
        1 gtcatcgttg tgagcccgct atcagcggcc agcgcgggcg cggccggaga ccgtggggcc
       61 cccggttgcc gccccctcgg gagccaccat gttggtgata ccccccggac tgagcgagga
      121 agaggaggct ctgcagaaga aattcaacaa gctcaagaaa aagaaaaagg cattgctggc
      181 tctgaagaag caaagtagca gcagcacaac cagccaaggt ggtgtcaaac gctcactatc
      241 agagcagcct gtcatggaca cagccacagc aacagagcag gcaaagcagc tggtgaagtc
      301 aggagccatc agtgccatca aggctgagac caagaactca ggcttcaagc gttctcgaac
      361 ccttgagggg aagttaaagg accccgagaa gggaccagtc cccactttcc agccgttcca
      421 gaggagcata tctgctgatg atgacctgca agagtcatcc agacgtcccc agaggaaatc
      481 tctgtatgag agctttgtgt cttctagtga tcgacttcga gaactaggac cagatggaga
      541 agaggcagag ggcccagggg ctggtgatgg tccccctcga agctttgact ggggctatga
      601 agaacgcagt ggtgcccact cctcagcctc ccctccccga agccgcagcc gggaccgcag
      661 ccatgagagg aaccgggaca gagaccgaga tcgggagcgg gatcgagacc gggatcgaga
      721 cagagacaga gagcgggaca gggatcggga tcgggatcga gatcgagacc gggaacggga
      781 cagggatcgg gagcgggatc gagaccgaga ccgagagggt cctttccgca ggtcggattc
      841 attccctgaa cggcgagccc ctaggaaagg gaatactctc tatgtatatg gagaagacat
      901 gacacccacc cttctccgtg gggccttctc tccttttgga aacatcattg acctctccat
      961 ggacccaccc agaaactgtg ccttcgtcac ctatgaaaag atggagtcag cagatcaggc
     1021 cgttgctgag ctcaacggga cccaggtgga gtctgtacag ctcaaagtca acatagcccg
     1081 aaaacagccc atgctggatg ccgctactgg caagtctgtc tggggctccc tcgctgtcca
     1141 gaacagccct aagggttgcc accgggacaa gaggacccag attgtctaca gtgatgacgt
     1201 ctacaaggaa aaccttgtgg atggcttcta gggaacagag ctggattcct tgtgcctcat
     1261 atgccccaat gctggtctca gtaaaacact gaggtggaag cttacacatc tccctcagcc
     1321 tctggttttt cagcacttgg gattggggtt aaacctttaa aaacggctgt caggtttgat
     1381 ctcagtgtaa caacatggcc agtgcctgtt ccccactccc ttgccccaaa aggatctgga
     1441 acaca
//
