LOCUS       NM_018427               3706 bp    mRNA    linear   PRI 20-FEB-2025
DEFINITION  Homo sapiens RRN3 homolog, RNA polymerase I transcription factor
            (RRN3), transcript variant 1, mRNA.
ACCESSION   NM_018427
VERSION     NM_018427.5
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 3706)
  AUTHORS   Batbayar,C., Ishii,N., Harimoto,N., Yokobori,T., Saito,H.,
            Gantumur,D., Gombodorj,N., Erkhem-Ochir,B., Muranushi,R.,
            Hoshino,K., Yamanaka,T., Hagiwara,K., Tsukagoshi,M., Watanabe,A.,
            Araki,K., Hosouchi,Y. and Shirabe,K.
  TITLE     High RRN3 expression is associated with malignant characteristics
            and poor prognosis in pancreatic cancer
  JOURNAL   Int J Clin Oncol 28 (7), 901-912 (2023)
   PUBMED   37119370
  REMARK    GeneRIF: High RRN3 expression is associated with malignant
            characteristics and poor prognosis in pancreatic cancer.
REFERENCE   2  (bases 1 to 3706)
  AUTHORS   Qin,Y., Huttlin,E.L., Winsnes,C.F., Gosztyla,M.L., Wacheul,L.,
            Kelly,M.R., Blue,S.M., Zheng,F., Chen,M., Schaffer,L.V., Licon,K.,
            Backstrom,A., Vaites,L.P., Lee,J.J., Ouyang,W., Liu,S.N., Zhang,T.,
            Silva,E., Park,J., Pitea,A., Kreisberg,J.F., Gygi,S.P., Ma,J.,
            Harper,J.W., Yeo,G.W., Lafontaine,D.L.J., Lundberg,E. and Ideker,T.
  TITLE     A multi-scale map of cell structure fusing protein images and
            interactions
  JOURNAL   Nature 600 (7889), 536-542 (2021)
   PUBMED   34819669
REFERENCE   3  (bases 1 to 3706)
  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 3706)
  AUTHORS   Nguyen,D.Q., Hoang,D.H., Nguyen,T.T.V., Ho,H.D., Huynh,V.,
            Shin,J.H., Ly,Q.T., Thi Nguyen,D.D., Ghoda,L., Marcucci,G. and
            Nguyen,L.X.T.
  TITLE     Ebp1 p48 promotes oncogenic activities in human colon cancer cells
            through regulation of TIF-90-mediated ribosomal RNA synthesis
  JOURNAL   J Cell Physiol 234 (10), 17612-17621 (2019)
   PUBMED   30793766
  REMARK    GeneRIF: Depletion of Ebp1 expression in primary colon cancer cells
            inhibits cell proliferation, colony forming, and invasion in vitro
            as well as tumor formation in vivo and enhances cell sensitivity to
            irradiation. We further demonstrated that Ebp1 interacts with
            TIF-90, a splice variant of transcription initiation factor IA
            (TIF-IA) of the RNA polymerase I complex.
REFERENCE   5  (bases 1 to 3706)
  AUTHORS   Chen,J., Lobb,I.T., Morin,P., Novo,S.M., Simpson,J.,
            Kennerknecht,K., von Kriegsheim,A., Batchelor,E.E., Oakley,F. and
            Stark,L.A.
  TITLE     Identification of a novel TIF-IA-NF-kappaB nucleolar stress
            response pathway
  JOURNAL   Nucleic Acids Res 46 (12), 6188-6205 (2018)
   PUBMED   29873780
  REMARK    GeneRIF: Specific stress stimuli of NF-kappaB induce degradation of
            a critical component of the PolI complex, TIF-IA. This degradation
            precedes activation of NF-kappaB and is associated with increased
            nucleolar size.
REFERENCE   6  (bases 1 to 3706)
  AUTHORS   Zhao,J., Yuan,X., Frodin,M. and Grummt,I.
  TITLE     ERK-dependent phosphorylation of the transcription initiation
            factor TIF-IA is required for RNA polymerase I transcription and
            cell growth
  JOURNAL   Mol Cell 11 (2), 405-413 (2003)
   PUBMED   12620228
  REMARK    GeneRIF: ERK-dependent phosphorylation of the transcription
            initiation factor TIF-IA is required for RNA polymerase I
            transcription and cell growth.
REFERENCE   7  (bases 1 to 3706)
  AUTHORS   Yuan,X., Zhao,J., Zentgraf,H., Hoffmann-Rohrer,U. and Grummt,I.
  TITLE     Multiple interactions between RNA polymerase I, TIF-IA and TAF(I)
            subunits regulate preinitiation complex assembly at the ribosomal
            gene promoter
  JOURNAL   EMBO Rep 3 (11), 1082-1087 (2002)
   PUBMED   12393749
  REMARK    GeneRIF: Data show that nutrient starvation, density arrest and
            protein synthesis inhibitors inactivate transcription initiation
            factor-IA and impair its association with RNA polymerase I.
REFERENCE   8  (bases 1 to 3706)
  AUTHORS   Miller,G., Panov,K.I., Friedrich,J.K., Trinkle-Mulcahy,L.,
            Lamond,A.I. and Zomerdijk,J.C.
  TITLE     hRRN3 is essential in the SL1-mediated recruitment of RNA
            Polymerase I to rRNA gene promoters
  JOURNAL   EMBO J 20 (6), 1373-1382 (2001)
   PUBMED   11250903
REFERENCE   9  (bases 1 to 3706)
  AUTHORS   Bodem,J., Dobreva,G., Hoffmann-Rohrer,U., Iben,S., Zentgraf,H.,
            Delius,H., Vingron,M. and Grummt,I.
  TITLE     TIF-IA, the factor mediating growth-dependent control of ribosomal
            RNA synthesis, is the mammalian homolog of yeast Rrn3p
  JOURNAL   EMBO Rep 1 (2), 171-175 (2000)
   PUBMED   11265758
REFERENCE   10 (bases 1 to 3706)
  AUTHORS   Moorefield,B., Greene,E.A. and Reeder,R.H.
  TITLE     RNA polymerase I transcription factor Rrn3 is functionally
            conserved between yeast and human
  JOURNAL   Proc Natl Acad Sci U S A 97 (9), 4724-4729 (2000)
   PUBMED   10758157
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AK225662.1, BC132688.1 and BC036182.1.
            
            On Nov 27, 2019 this sequence version replaced NM_018427.4.
            
            Transcript Variant: This variant (1) encodes the longer isoform
            (1).
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data to make the sequence consistent with the
            reference genome assembly. The genomic coordinates used for the
            transcript record were based on transcript alignments.
            
            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 :: BC036182.1, AJ272050.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000198767.11/ ENSP00000198767.7
            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
            1-28                AK225662.1         40-67
            29-2850             BC132688.1         9-2830
            2851-3706           BC036182.1         2829-3684
FEATURES             Location/Qualifiers
     source          1..3706
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="16"
                     /map="16p13.11"
     gene            1..3706
                     /gene="RRN3"
                     /gene_synonym="A-270G1.2; TIFIA"
                     /note="RRN3 homolog, RNA polymerase I transcription
                     factor"
                     /db_xref="GeneID:54700"
                     /db_xref="HGNC:HGNC:30346"
                     /db_xref="MIM:605121"
     exon            1..128
                     /gene="RRN3"
                     /gene_synonym="A-270G1.2; TIFIA"
                     /inference="alignment:Splign:2.1.0"
     CDS             40..1995
                     /gene="RRN3"
                     /gene_synonym="A-270G1.2; TIFIA"
                     /note="isoform 1 is encoded by transcript variant 1; RNA
                     polymerase I-specific transcription initiation factor
                     RRN3; transcription initiation factor TIF-IA;
                     transcription initiation factor IA; RRN3 RNA polymerase I
                     transcription factor homolog"
                     /codon_start=1
                     /product="RNA polymerase I-specific transcription
                     initiation factor RRN3 isoform 1"
                     /protein_id="NP_060897.3"
                     /db_xref="CCDS:CCDS10559.1"
                     /db_xref="GeneID:54700"
                     /db_xref="HGNC:HGNC:30346"
                     /db_xref="MIM:605121"
                     /translation="MAAPLLHTRLPGDAAASSSAVKKLGASRTGISNMRALENDFFNS
                     PPRKTVRFGGTVTEVLLKYKKGETNDFELLKNQLLDPDIKDDQIINWLLEFRSSIMYL
                     TKDFEQLISIILRLPWLNRSQTVVEEYLAFLGNLVSAQTVFLRPCLSMIASHFVPPRV
                     IIKEGDVDVSDSDDEDDNLPANFDTCHRALQIIARYVPSTPWFLMPILVEKFPFVRKS
                     ERTLECYVHNLLRISVYFPTLRHEILELIIEKLLKLDVNASRQGIEDAEETATQTCGG
                     TDSTEGLFNMDEDEETEHETKAGPERLDQMVHPVAERLDILMSLVLSYMKDVCYVDGK
                     VDNGKTKDLYRDLINIFDKLLLPTHASCHVQFFMFYLCSFKLGFAEAFLEHLWKKLQD
                     PSNPAIIRQAAGNYIGSFLARAKFIPLITVKSCLDLLVNWLHIYLNNQDSGTKAFCDV
                     ALHGPFYSACQAVFYTFVFRHKQLLSGNLKEGLQYLQSLNFERIVMSQLNPLKICLPS
                     VVNFFAAITNKYQLVFCYTIIERNNRQMLPVIRSTAGGDSVQICTNPLDTFFPFDPCV
                     LKRSKKFIDPIYQVWEDMSAEELQEFKKPMKKDIVEDEDDDFLKGEVPQNDTVIGITP
                     SSFDTHFRSPSSSVGSPPVLYMQPSPL"
     exon            129..234
                     /gene="RRN3"
                     /gene_synonym="A-270G1.2; TIFIA"
                     /inference="alignment:Splign:2.1.0"
     exon            235..291
                     /gene="RRN3"
                     /gene_synonym="A-270G1.2; TIFIA"
                     /inference="alignment:Splign:2.1.0"
     exon            292..381
                     /gene="RRN3"
                     /gene_synonym="A-270G1.2; TIFIA"
                     /inference="alignment:Splign:2.1.0"
     exon            382..511
                     /gene="RRN3"
                     /gene_synonym="A-270G1.2; TIFIA"
                     /inference="alignment:Splign:2.1.0"
     exon            512..571
                     /gene="RRN3"
                     /gene_synonym="A-270G1.2; TIFIA"
                     /inference="alignment:Splign:2.1.0"
     exon            572..635
                     /gene="RRN3"
                     /gene_synonym="A-270G1.2; TIFIA"
                     /inference="alignment:Splign:2.1.0"
     exon            636..705
                     /gene="RRN3"
                     /gene_synonym="A-270G1.2; TIFIA"
                     /inference="alignment:Splign:2.1.0"
     exon            706..804
                     /gene="RRN3"
                     /gene_synonym="A-270G1.2; TIFIA"
                     /inference="alignment:Splign:2.1.0"
     exon            805..897
                     /gene="RRN3"
                     /gene_synonym="A-270G1.2; TIFIA"
                     /inference="alignment:Splign:2.1.0"
     exon            898..1036
                     /gene="RRN3"
                     /gene_synonym="A-270G1.2; TIFIA"
                     /inference="alignment:Splign:2.1.0"
     exon            1037..1167
                     /gene="RRN3"
                     /gene_synonym="A-270G1.2; TIFIA"
                     /inference="alignment:Splign:2.1.0"
     exon            1168..1298
                     /gene="RRN3"
                     /gene_synonym="A-270G1.2; TIFIA"
                     /inference="alignment:Splign:2.1.0"
     exon            1299..1483
                     /gene="RRN3"
                     /gene_synonym="A-270G1.2; TIFIA"
                     /inference="alignment:Splign:2.1.0"
     exon            1484..1592
                     /gene="RRN3"
                     /gene_synonym="A-270G1.2; TIFIA"
                     /inference="alignment:Splign:2.1.0"
     exon            1593..1745
                     /gene="RRN3"
                     /gene_synonym="A-270G1.2; TIFIA"
                     /inference="alignment:Splign:2.1.0"
     exon            1746..1833
                     /gene="RRN3"
                     /gene_synonym="A-270G1.2; TIFIA"
                     /inference="alignment:Splign:2.1.0"
     exon            1834..3706
                     /gene="RRN3"
                     /gene_synonym="A-270G1.2; TIFIA"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3686..3691
                     /regulatory_class="polyA_signal_sequence"
                     /gene="RRN3"
                     /gene_synonym="A-270G1.2; TIFIA"
                     /note="hexamer: AATAAA"
     polyA_site      3706
                     /gene="RRN3"
                     /gene_synonym="A-270G1.2; TIFIA"
                     /note="major polyA site"
ORIGIN      
        1 atccggcctg aggcgcagcg gtcgcgttag ttcggcccaa tggcggcacc gctgcttcac
       61 acgcgtttgc cgggagatgc ggccgcttcg tcctctgcag ttaagaagct gggcgcgtcg
      121 aggactggga tttcaaatat gcgtgcatta gagaatgact ttttcaattc tcccccaaga
      181 aaaactgttc ggtttggtgg aactgtgaca gaagtcttgc tgaagtacaa aaagggtgaa
      241 acaaatgact ttgagttgtt gaagaaccag ctgttagatc cagacataaa ggatgaccag
      301 atcatcaact ggctgctaga attccgttct tctatcatgt acttgacaaa agactttgag
      361 caacttatca gtattatatt aagattgcct tggttgaata gaagtcaaac agtagtggaa
      421 gagtatttgg cttttcttgg taatcttgta tcagcacaga ctgttttcct cagaccgtgt
      481 ctcagcatga ttgcttccca ttttgtgcct ccccgagtga tcattaagga aggcgatgta
      541 gatgtttcag attctgatga tgaagatgat aatcttcctg caaattttga cacatgtcac
      601 agagccttgc aaataatagc aagatatgta ccatcgacac cgtggtttct catgccaata
      661 ctggtggaaa aatttccatt tgttcgaaaa tcagagagaa cactggaatg ttacgttcat
      721 aacttactaa ggattagtgt atattttcca accttgaggc atgaaattct ggagcttatt
      781 attgaaaaac tactcaagtt ggatgtgaat gcatcccggc agggtattga agatgctgaa
      841 gaaacagcaa ctcaaacttg tggtgggaca gattccacgg aaggattgtt taatatggat
      901 gaagatgaag aaactgaaca tgaaacaaag gctggtcctg aacggctcga ccagatggtg
      961 catcctgtag ccgagcgcct ggacatcctg atgtctttgg ttttgtccta catgaaggat
     1021 gtctgctatg tagatggtaa ggttgataac ggcaaaacaa aggatctata tcgcgacctg
     1081 ataaacatct ttgacaaact cctgttgccc acccatgcct cctgccatgt acagtttttc
     1141 atgttttacc tctgtagttt caaattggga ttcgcagagg catttttgga acatctctgg
     1201 aaaaaattgc aggacccaag taatcctgcc atcatcaggc aggctgctgg aaattatatt
     1261 ggaagctttt tggcaagagc taaatttatt cctcttatta ctgtaaaatc atgcctagat
     1321 cttttggtta actggctgca catatacctt aataaccagg attcgggaac aaaggcattc
     1381 tgcgatgttg ctctccatgg accattttac tcagcctgcc aagctgtgtt ctacaccttt
     1441 gtttttagac acaagcagct tttgagcgga aacctgaaag aaggtttgca gtatcttcag
     1501 agtctgaatt ttgagcggat agtgatgagc cagctaaatc ccctgaagat ttgcctgccc
     1561 tcagtggtta acttttttgc tgcaatcaca aataagtacc agctcgtctt ctgctacacc
     1621 atcattgaga ggaacaatcg ccagatgctg ccagtcatta ggagtaccgc tggaggagac
     1681 tcagtgcaga tctgcacaaa cccgctggac accttcttcc cctttgatcc ctgtgtgctg
     1741 aagaggtcaa agaaattcat tgatcctatt tatcaggtgt gggaagacat gagtgctgaa
     1801 gagctacagg agttcaagaa acccatgaaa aaggacatag tggaagatga agatgatgac
     1861 tttctgaaag gcgaagtgcc ccagaatgat accgtgattg ggatcacacc aagctccttt
     1921 gacacgcatt tccgaagtcc ttcaagtagt gtgggctccc cacccgtgtt gtacatgcaa
     1981 cccagtcccc tctgacggca gaaatttgtg actgagatgt gacatttggg attccccatc
     2041 acttgtcatg ccctcagcac ccagcttgtg ccattgggca ttgatggcat tgaactagag
     2101 cgagtgcctg cctcggctgt ggcacttcca ggttcgactg aatcaagcat ctgaagactg
     2161 ggtttttttg ttgttgttgt tccccttaca gacaaaatga agactatcat gtgcaatctt
     2221 ttacagtggg gttgatgata catttggaag gatttgcttg tttaatatgt acattttttg
     2281 tgttaacagc tttttgacac aattactggg taatttctaa tataggcagc agactgtttt
     2341 acgggttgct gttttaacat gggtttttgt cagatccatg gtcttaggac ttgactgatg
     2401 agctttcagt gaagaatcct ctaagataaa acttctattt aaagacttta actagaaagt
     2461 gtttattttg gctacattgt tcaccttctg ctgtattggt atttgtctgt tgggatttca
     2521 agggagtgta gagaagacag aaggaaagct gagagctggc ccgacatggt ctgggacaca
     2581 gagttggagc tggcactgaa gatctccagg gacttcagag accaataaaa gcccataggg
     2641 aagagagaga ggatataggg aaacagaatc agatgtgtaa tatacttggc acagcgaaaa
     2701 aatggattta aaagacaaaa atggaggtcc aggtagatgt aattcacaca gactgaaagt
     2761 gagttcgggc ttgtgtaaaa cacatgagat tggatttgac cccttggctc tcaagtgtcc
     2821 ccttagatct agaactgctc cttggtggcc attagatcga gtcagttttg atctgcatca
     2881 cttagttatt gggaatttct ttgttggaaa caggaaaatt tttttagatt atttggtgta
     2941 cggttttgct cacaacaata ggtggaagtt gctagtgcag tcttggtctg atggctgtgt
     3001 gcatcgcaca ttcggcttgg tgaaatcctt ctctaaagcc tctttttgta tttttataac
     3061 taaacagagg aagtcttcag aagacctcgc tttaaaacaa atttgtgcaa acactgctag
     3121 agtcattttg aagctcaagc attttcactt tgtttcttac atgtgtactt ttttgtttac
     3181 ttgtgaaaat ggccatcttt aagcatattt attttctgcc actttattta aaggcaagca
     3241 atattttctt gatcataaat attttgtaat gaaatacttc ctcttttcca gggctttgta
     3301 tgcacttgta taattacatt gatggcaatg tagagtttga atttcagtct gtaaatactt
     3361 ttttggaaaa tagaaatttt tattgcttta aagttttgga tatgggtggt tttcttttcc
     3421 gggtttggtg gaaagtaatt tgagaacttt aaggttgtct ttttaactgc tggcaaaatg
     3481 ttgatttttt aatattagat aaaacgagta aacgaaattc cccagaaatt agtagtaagt
     3541 ggggtctttg tgggttggga agtagtttta atgtagaaag acatttacat ataagtctgt
     3601 ttaatttcaa aggagtttgt gaaaaaaaat ccatggtgaa aatgaaacaa tgacatggtt
     3661 aatctggaac ttacgttctt ataccaataa aaggtacctc aataca
//
