LOCUS       NM_117687                814 bp    mRNA    linear   PLN 20-OCT-2022
DEFINITION  Arabidopsis thaliana RNA polymerase II, Rpb4, core protein (NRPD4),
            mRNA.
ACCESSION   NM_117687
VERSION     NM_117687.2
DBLINK      BioProject: PRJNA116
            BioSample: SAMN03081427
KEYWORDS    RefSeq.
SOURCE      Arabidopsis thaliana (thale cress)
  ORGANISM  Arabidopsis thaliana
            Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
            Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae;
            Pentapetalae; rosids; malvids; Brassicales; Brassicaceae;
            Camelineae; Arabidopsis.
REFERENCE   1  (bases 1 to 814)
  AUTHORS   Mayer,K., Schuller,C., Wambutt,R., Murphy,G., Volckaert,G.,
            Pohl,T., Dusterhoft,A., Stiekema,W., Entian,K.D., Terryn,N.,
            Harris,B., Ansorge,W., Brandt,P., Grivell,L., Rieger,M.,
            Weichselgartner,M., de Simone,V., Obermaier,B., Mache,R.,
            Muller,M., Kreis,M., Delseny,M., Puigdomenech,P., Watson,M.,
            Schmidtheini,T., Reichert,B., Portatelle,D., Perez-Alonso,M.,
            Boutry,M., Bancroft,I., Vos,P., Hoheisel,J., Zimmermann,W.,
            Wedler,H., Ridley,P., Langham,S.A., McCullagh,B., Bilham,L.,
            Robben,J., Van der Schueren,J., Grymonprez,B., Chuang,Y.J.,
            Vandenbussche,F., Braeken,M., Weltjens,I., Voet,M., Bastiaens,I.,
            Aert,R., Defoor,E., Weitzenegger,T., Bothe,G., Ramsperger,U.,
            Hilbert,H., Braun,M., Holzer,E., Brandt,A., Peters,S., van
            Staveren,M., Dirske,W., Mooijman,P., Klein Lankhorst,R., Rose,M.,
            Hauf,J., Kotter,P., Berneiser,S., Hempel,S., Feldpausch,M.,
            Lamberth,S., Van den Daele,H., De Keyser,A., Buysshaert,C.,
            Gielen,J., Villarroel,R., De Clercq,R., Van Montagu,M., Rogers,J.,
            Cronin,A., Quail,M., Bray-Allen,S., Clark,L., Doggett,J., Hall,S.,
            Kay,M., Lennard,N., McLay,K., Mayes,R., Pettett,A.,
            Rajandream,M.A., Lyne,M., Benes,V., Rechmann,S., Borkova,D.,
            Blocker,H., Scharfe,M., Grimm,M., Lohnert,T.H., Dose,S., de
            Haan,M., Maarse,A., Schafer,M., Muller-Auer,S., Gabel,C., Fuchs,M.,
            Fartmann,B., Granderath,K., Dauner,D., Herzl,A., Neumann,S.,
            Argiriou,A., Vitale,D., Liguori,R., Piravandi,E., Massenet,O.,
            Quigley,F., Clabauld,G., Mundlein,A., Felber,R., Schnabl,S.,
            Hiller,R., Schmidt,W., Lecharny,A., Aubourg,S., Chefdor,F.,
            Cooke,R., Berger,C., Montfort,A., Casacuberta,E., Gibbons,T.,
            Weber,N., Vandenbol,M., Bargues,M., Terol,J., Torres,A.,
            Perez-Perez,A., Purnelle,B., Bent,E., Johnson,S., Tacon,D.,
            Jesse,T., Heijnen,L., Schwarz,S., Scholler,P., Heber,S., Francs,P.,
            Bielke,C., Frishman,D., Haase,D., Lemcke,K., Mewes,H.W.,
            Stocker,S., Zaccaria,P., Bevan,M., Wilson,R.K., de la Bastide,M.,
            Habermann,K., Parnell,L., Dedhia,N., Gnoj,L., Schutz,K., Huang,E.,
            Spiegel,L., Sehkon,M., Murray,J., Sheet,P., Cordes,M.,
            Abu-Threideh,J., Stoneking,T., Kalicki,J., Graves,T., Harmon,G.,
            Edwards,J., Latreille,P., Courtney,L., Cloud,J., Abbott,A.,
            Scott,K., Johnson,D., Minx,P., Bentley,D., Fulton,B., Miller,N.,
            Greco,T., Kemp,K., Kramer,J., Fulton,L., Mardis,E., Dante,M.,
            Pepin,K., Hillier,L., Nelson,J., Spieth,J., Ryan,E., Andrews,S.,
            Geisel,C., Layman,D., Du,H., Ali,J., Berghoff,A., Jones,K.,
            Drone,K., Cotton,M., Joshu,C., Antonoiu,B., Zidanic,M., Strong,C.,
            Sun,H., Lamar,B., Yordan,C., Ma,P., Zhong,J., Preston,R., Vil,D.,
            Shekher,M., Matero,A., Shah,R., Swaby,I.K., O'Shaughnessy,A.,
            Rodriguez,M., Hoffmann,J., Till,S., Granat,S., Shohdy,N.,
            Hasegawa,A., Hameed,A., Lodhi,M., Johnson,A., Chen,E., Marra,M.,
            Martienssen,R. and McCombie,W.R.
  TITLE     Sequence and analysis of chromosome 4 of the plant Arabidopsis
            thaliana
  JOURNAL   Nature 402 (6763), 769-777 (1999)
   PUBMED   10617198
REFERENCE   2  (bases 1 to 814)
  CONSRTM   NCBI Genome Project
  TITLE     Direct Submission
  JOURNAL   Submitted (19-OCT-2022) National Center for Biotechnology
            Information, NIH, Bethesda, MD 20894, USA
REFERENCE   3  (bases 1 to 814)
  AUTHORS   Krishnakumar,V., Cheng,C.-Y., Chan,A.P., Schobel,S., Kim,M.,
            Ferlanti,E.S., Belyaeva,I., Rosen,B.D., Micklem,G., Miller,J.R.,
            Vaughn,M. and Town,C.D.
  TITLE     Direct Submission
  JOURNAL   Submitted (17-MAY-2016) Plant Genomics, J. Craig Venter Institute,
            9704 Medical Center Dr, Rockville, MD 20850, USA
  REMARK    Protein update by submitter
REFERENCE   4  (bases 1 to 814)
  AUTHORS   Swarbreck,D., Lamesch,P., Wilks,C. and Huala,E.
  CONSRTM   TAIR
  TITLE     Direct Submission
  JOURNAL   Submitted (18-FEB-2011) Department of Plant Biology, Carnegie
            Institution, 260 Panama Street, Stanford, CA, USA
COMMENT     REVIEWED REFSEQ: This record has been curated by TAIR and Araport.
            This record is derived from an annotated genomic sequence
            (NC_003075).
            
            On May 26, 2011 this sequence version replaced NM_117687.1.
FEATURES             Location/Qualifiers
     source          1..814
                     /organism="Arabidopsis thaliana"
                     /mol_type="mRNA"
                     /db_xref="taxon:3702"
                     /chromosome="4"
                     /ecotype="Columbia"
     gene            1..814
                     /gene="NRPD4"
                     /locus_tag="AT4G15950"
                     /gene_synonym="DL4012W; FCAALL.240; NRPE4; RDM2;
                     RNA-DIRECTED DNA METHYLATION 2"
                     /note="Non-catalytic subunit common to Nuclear
                     DNA-dependent RNA polymerases IV and V; homologous to
                     budding yeast RPB4. Role in gene silencing. Required for
                     RNA-directed DNA methylation."
                     /db_xref="Araport:AT4G15950"
                     /db_xref="GeneID:827277"
                     /db_xref="TAIR:AT4G15950"
     CDS             61..679
                     /gene="NRPD4"
                     /locus_tag="AT4G15950"
                     /gene_synonym="DL4012W; FCAALL.240; NRPE4; RDM2;
                     RNA-DIRECTED DNA METHYLATION 2"
                     /inference="similar to RNA sequence,
                     EST:INSD:ES197708.1,INSD:EL316587.1,INSD:ES205252.1,
                     INSD:ES196420.1"
                     /exception="annotated by transcript or proteomic data"
                     /note="NRPD4; FUNCTIONS IN: DNA-directed RNA polymerase
                     activity, nucleotide binding, catalytic activity; INVOLVED
                     IN: RNA interference, interphase, production of siRNA
                     involved in RNA interference, DNA methylation on cytosine
                     within a CHH sequence; LOCATED IN: DNA-directed RNA
                     polymerase V complex, nucleus, DNA-directed RNA polymerase
                     IV complex; EXPRESSED IN: 23 plant structures; EXPRESSED
                     DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s:
                     HRDC-like (InterPro:IPR010997), RNA polymerase II, Rpb4
                     (InterPro:IPR005574), RNA polymerase II, Rpb4, core
                     (InterPro:IPR006590); BEST Arabidopsis thaliana protein
                     match is: RNA polymerase II, Rpb4, core protein
                     (TAIR:AT5G09920.1); Has 23 Blast hits to 23 proteins in 3
                     species: Archae - 0; Bacteria - 0; Metazoa - 0; Fungi - 0;
                     Plants - 23; Viruses - 0; Other Eukaryotes - 0 (source:
                     NCBI BLink)."
                     /codon_start=1
                     /product="RNA polymerase II, Rpb4, core protein"
                     /protein_id="NP_193330.3"
                     /db_xref="GeneID:827277"
                     /db_xref="TAIR:AT4G15950"
                     /db_xref="Araport:AT4G15950"
                     /translation="

MSVIAHVDHGKSTLTDSLVAAAGIIAQETAGDVRMTDTRADEAERGITIKSTGISLYYEMTDASLKSFTGARDGNEYLINLIDSPGHVDFSSEVTAALRITDGALVVVDCIEGVCVQTETVLRQSLGERIRPVLTVNKMDRCFLELKVDGEEAYQNFQRVIENANVIMATHEDPLLGDVQVYPEKGTVAFSAGLHGWAFTLTNFAKMYASKFGVSESKMMERLWGENFFDSATRKWTTKTGSPTCKRGFVQFCYEPIKIMINTCMNDQKDKLWPMLEKLGIQMKPDEKELMGKPLMKRVMQAWLPASTALLEMMIFHLPSPYTAQRYRVENLYEGPLDDKYAAAIRNCDPDGPLMLYVSKMIPASDKGRFFAFGRVFSGTVSTGMKVRIMGPNYVPGEKKDLYVKSVQRTVIWMGKKQETVEDVPCGNTVAMVGLDQFITKNGTLTNEKEVDAHPLRAMKFSVSPVVRVAVKCKLASDLPKLVEGLKRLAKSDPMVLCTMEESGEHIVAGAGELHIEICVKDLQDFMGGADIIVSDPVVSLRETVFERSCRTVMSKSPNKHNRLYMEARPMEDGLAEAIDEGRIGPSDDPKIRSKILAEEFGWDKDLAKKIWAFGPDTTGPNMVVDMCKGVQYLNEIKDSVVAGFQWASKEGPLAEENMRGVCYEVCDVVLHADAIHRGCGQMISTARRAIYASQLTAKPRLLEPVYMVEIQAPEGALGGIYSVLNQKRGHVFEEMQRPGTPLYNIKAYLPVVESFGFSGQLRAATSGQAFPQCVFDHWDMMSSDPLETGSQAATLVADIRKRKGLKLQMTPLSDYEDKLGNLJCVIMRNAATGGNLJCVIATG"

     misc_feature    61..679
                     /gene="NRPD4"
                     /locus_tag="AT4G15950"
                     /gene_synonym="DL4012W; FCAALL.240; NRPE4; RDM2;
                     RNA-DIRECTED DNA METHYLATION 2"
                     /note="translation elongation factor EF-2 subunit;
                     Provisional; Region: PLN00116"
                     /db_xref="CDD:177730"
ORIGIN      

atttttatctgttttgagtctttttgcttttttatctcaatcgtctctcgtagcagaaaaatgtcagagaaaggaggcaaggggctcaaatcctctctcaagtccaaagatggagggaaggatgggagctcaacaaagctcaagaagggtagaaaaatccactttgatcaacggactccacctgctaattacaagattctcaatgtttcttctgatcaacaaccatttcagagttctgctgctaaatgtgggaaaagtgacaaacctaccaagtctagcaaaaactctctgcattcgtttgagctcaaagatcttcctgagaatgctgaatgcatgatggactgtgaagcttttcagatattagatggaattaagggacaattggttggcttgtctgaagatccgtctaattaaaattcctgtatcttatgacagagcattggcttatgttgagagttgtgttcactacacaaaccctcaatctgtcagaaaagtccttgaacctctgaaaacgtatggtatctctgatggcgagatgtgtgttattgcaaatgcttcttcagagagcgtagatgaagttcttgcctttattccatcgctgaagactaaaaaagaggtgatcaatcaacctctacaagatgcattggaggagctatccaagctgaagaaatcggaatgatgagcagcagactgctgcagtgaatggttcaatgctaggagtagtttgcaggtagacatcataaaatgtaattgcgtctttgcctttctcaacattaaccaacctgtgcaatggcaatggcaacttttgtctagt

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