LOCUS       NM_001045863            1535 bp    mRNA    linear   ROD 30-APR-2024
DEFINITION  Mus musculus negative elongation factor complex member E, Rdbp
            (Nelfe), transcript variant 2, mRNA.
ACCESSION   NM_001045863
VERSION     NM_001045863.1
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 1535)
  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 1535)
  AUTHORS   Abe,K., Schauer,T. and Torres-Padilla,M.E.
  TITLE     Distinct patterns of RNA polymerase II and transcriptional
            elongation characterize mammalian genome activation
  JOURNAL   Cell Rep 41 (13), 111865 (2022)
   PUBMED   36577375
REFERENCE   3  (bases 1 to 1535)
  AUTHORS   Etchegaray,J.P., Zhong,L., Li,C., Henriques,T., Ablondi,E.,
            Nakadai,T., Van Rechem,C., Ferrer,C., Ross,K.N., Choi,J.E.,
            Samarakkody,A., Ji,F., Chang,A., Sadreyev,R.I., Ramaswamy,S.,
            Nechaev,S., Whetstine,J.R., Roeder,R.G., Adelman,K., Goren,A. and
            Mostoslavsky,R.
  TITLE     The Histone Deacetylase SIRT6 Restrains Transcription Elongation
            via Promoter-Proximal Pausing
  JOURNAL   Mol Cell 75 (4), 683-699 (2019)
   PUBMED   31399344
REFERENCE   4  (bases 1 to 1535)
  AUTHORS   Liu,H.B., Muhammad,T., Guo,Y., Li,M.J., Sha,Q.Q., Zhang,C.X.,
            Liu,H., Zhao,S.G., Zhao,H., Zhang,H., Du,Y.Z., Sun,K., Liu,K.,
            Lu,G., Guo,X.J., Sha,J., Fan,H.Y., Gao,F. and Chen,Z.J.
  TITLE     RNA-Binding Protein IGF2BP2/IMP2 is a Critical Maternal Activator
            in Early Zygotic Genome Activation
  JOURNAL   Adv Sci (Weinh) 6 (15), 1900295 (2019)
   PUBMED   31406667
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 1535)
  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   6  (bases 1 to 1535)
  AUTHORS   Allcock,R.J., Martin,A.M. and Price,P.
  TITLE     The mouse as a model for the effects of MHC genes on human disease
  JOURNAL   Immunol Today 21 (7), 328-332 (2000)
   PUBMED   10871872
  REMARK    Review article
REFERENCE   7  (bases 1 to 1535)
  AUTHORS   Yang,Z. and Yu,C.Y.
  TITLE     Organizations and gene duplications of the human and mouse MHC
            complement gene clusters
  JOURNAL   Exp Clin Immunogenet 17 (1), 1-17 (2000)
   PUBMED   10686478
REFERENCE   8  (bases 1 to 1535)
  AUTHORS   Taylor,P.R., Slingsby,J.H., Walport,M.J. and Botto,M.
  TITLE     Murine D17H6S45 (Rd) gene: polymorphism and overlap with complement
            factor B
  JOURNAL   Mamm Genome 8 (10), 796-797 (1997)
   PUBMED   9321489
REFERENCE   9  (bases 1 to 1535)
  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   10 (bases 1 to 1535)
  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     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            CX203833.1, AK147011.1 and AI325150.1.
            
            Transcript Variant: This variant (2) has an alternate splice site
            in the 5' UTR, compared to variant 1. 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 :: AK147011.1, AK012389.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849374, SAMN00849375
                                           [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
            1-19                CX203833.1         2-20
            20-1521             AK147011.1         2-1503
            1522-1535           AI325150.1         1-14                c
FEATURES             Location/Qualifiers
     source          1..1535
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="17"
                     /map="17 18.4 cM"
     gene            1..1535
                     /gene="Nelfe"
                     /gene_synonym="D17H6S45; NELF-E; RD; Rdbp"
                     /note="negative elongation factor complex member E, Rdbp"
                     /db_xref="GeneID:27632"
                     /db_xref="MGI:MGI:102744"
     exon            1..198
                     /gene="Nelfe"
                     /gene_synonym="D17H6S45; NELF-E; RD; Rdbp"
                     /inference="alignment:Splign:2.1.0"
     exon            199..281
                     /gene="Nelfe"
                     /gene_synonym="D17H6S45; NELF-E; RD; Rdbp"
                     /inference="alignment:Splign:2.1.0"
     CDS             207..1310
                     /gene="Nelfe"
                     /gene_synonym="D17H6S45; NELF-E; RD; Rdbp"
                     /note="RNA-binding protein RD; RD RNA-binding protein"
                     /codon_start=1
                     /product="negative elongation factor E"
                     /protein_id="NP_001039328.1"
                     /db_xref="CCDS:CCDS28662.1"
                     /db_xref="GeneID:27632"
                     /db_xref="MGI:MGI:102744"
                     /translation="MLVIPPGLSEEEEALQKKFNKLKKKKKALLALKKQSSSGPASQG
                     GVKRSLSEQPVVDTATATEQAKQLVKSGAISAIKAETKNSGFKRSRTLEGKLKDPEKG
                     PVPTFQPFQRSMSADEDLQEPSRRPQRKSLYESFVSSSDRLRELGQDGEEAEAPGAGD
                     GPPRGFDWSYEEHGSARSSASPPRSRSRDRSHDRSRDRDRDKERDRDRDRDRDRDRDK
                     DKDRDRDRDRDRDRDRERDREGPFRRSDSFPERRAPRKGNTLYVYGEDMTPTLLRGAF
                     SPFGNIIDLSMDPPRNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIARKQPMLDA
                     ATGKSVWGSLAVQNSPKGCHRDKRTQIVYSDDL"
     exon            282..351
                     /gene="Nelfe"
                     /gene_synonym="D17H6S45; NELF-E; RD; Rdbp"
                     /inference="alignment:Splign:2.1.0"
     exon            352..497
                     /gene="Nelfe"
                     /gene_synonym="D17H6S45; NELF-E; RD; Rdbp"
                     /inference="alignment:Splign:2.1.0"
     exon            498..572
                     /gene="Nelfe"
                     /gene_synonym="D17H6S45; NELF-E; RD; Rdbp"
                     /inference="alignment:Splign:2.1.0"
     exon            573..610
                     /gene="Nelfe"
                     /gene_synonym="D17H6S45; NELF-E; RD; Rdbp"
                     /inference="alignment:Splign:2.1.0"
     exon            611..936
                     /gene="Nelfe"
                     /gene_synonym="D17H6S45; NELF-E; RD; Rdbp"
                     /inference="alignment:Splign:2.1.0"
     exon            937..1081
                     /gene="Nelfe"
                     /gene_synonym="D17H6S45; NELF-E; RD; Rdbp"
                     /inference="alignment:Splign:2.1.0"
     exon            1082..1136
                     /gene="Nelfe"
                     /gene_synonym="D17H6S45; NELF-E; RD; Rdbp"
                     /inference="alignment:Splign:2.1.0"
     exon            1137..1239
                     /gene="Nelfe"
                     /gene_synonym="D17H6S45; NELF-E; RD; Rdbp"
                     /inference="alignment:Splign:2.1.0"
     exon            1240..1524
                     /gene="Nelfe"
                     /gene_synonym="D17H6S45; NELF-E; RD; Rdbp"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1382..1387
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Nelfe"
                     /gene_synonym="D17H6S45; NELF-E; RD; Rdbp"
                     /note="hexamer: AGTAAA"
     polyA_site      1407
                     /gene="Nelfe"
                     /gene_synonym="D17H6S45; NELF-E; RD; Rdbp"
                     /note="major polyA site"
     polyA_site      1524
                     /gene="Nelfe"
                     /gene_synonym="D17H6S45; NELF-E; RD; Rdbp"
                     /note="major polyA site"
ORIGIN      
        1 tcgccgcgag ccagcgcgca gtagcccgcg cggcggcgcc ggagaccgcg ggcccgggcg
       61 ccgccccctc aggtgagggc ttcgtctcac atctttcgcg ccttccccgc gcggcccctg
      121 gttcttcttc ctcctcctct ggttgcccag atagcgctac gcgggcccgg ccgccttctc
      181 tgcccatcgg accccgagga gccaacatgt tggtgatacc tccggggctg agtgaagagg
      241 aagaggcact gcagaagaag ttcaacaaac tcaagaagaa gaaaaaggca ttgctggctc
      301 tgaagaagca gagcagcagc ggcccagcga gccagggcgg tgtcaaacgc tcactgtcag
      361 agcagcctgt ggtggacact gccacagcaa cagaacaggc caaacaactg gtgaagtcag
      421 gagccatcag tgccatcaag gctgaaacta agaactcagg cttcaaacgt tctcggaccc
      481 tggaagggaa gttaaaggac ccagagaagg ggcctgtccc cactttccag ccgttccaga
      541 ggagcatgtc tgctgatgag gacctacagg agccatccag acgtccccag aggaaatctc
      601 tgtatgaaag ctttgtgtct tctagtgatc ggcttcggga actgggacaa gatggagaag
      661 aagcagaggc ccccggggct ggtgatggcc cacctcgagg ctttgactgg agctatgaag
      721 agcatggtag cgcccgctcc tcagcctccc ctccccgaag ccgcagcagg gaccgaagtc
      781 atgaccggag ccgagatagg gatcgggaca aagagagaga cagagaccga gatcgagatc
      841 gagacagaga ccgggataaa gacaaagaca gagaccggga tcgagacaga gaccgggacc
      901 gagatcggga acgagaccga gagggccctt tccgcaggtc agactcattc cccgaacgga
      961 gggcccctcg aaaggggaac acactgtatg tgtatggaga ggacatgacg cccaccctcc
     1021 tccgcggggc cttctctccc tttggaaata tcatcgacct ctccatggac ccacccagaa
     1081 actgtgcctt cgtcacctac gagaagatgg agtctgcaga tcaggctgtt gctgagctca
     1141 atgggaccca ggtggaatct gtgcagctta aagtcaacat agcccgaaaa cagcccatgc
     1201 tggacgctgc tactggcaaa tctgtctggg gctcccttgc tgtccagaac agccctaagg
     1261 gttgccatcg agacaagagg acccagattg tgtacagtga cgatctatag gaaaccttgt
     1321 ggatggcttc taggacatga agctggattc cttgtgcctc atatgccccc aagctggtct
     1381 cagtaaaatc ctggggtaga agcttttcac ctccgtcagc ctctagtctt tcagcacttg
     1441 ggattggagt taagccttca aaagcggctg tcagtgttga tgttaaccag tgcacgccct
     1501 taccccaaaa agatgtggaa cacaaaaaaa aaaaa
//
