LOCUS       NM_001108421            4445 bp    mRNA    linear   ROD 24-JUN-2024
DEFINITION  Rattus norvegicus UPF2, regulator of nonsense mediated mRNA decay
            (Upf2), mRNA.
ACCESSION   NM_001108421 XM_001071022 XM_341556
VERSION     NM_001108421.1
KEYWORDS    RefSeq.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (bases 1 to 4445)
  AUTHORS   Chawla,R., Redon,S., Raftopoulou,C., Wischnewski,H., Gagos,S. and
            Azzalin,C.M.
  TITLE     Human UPF1 interacts with TPP1 and telomerase and sustains telomere
            leading-strand replication
  JOURNAL   EMBO J 30 (19), 4047-4058 (2011)
   PUBMED   21829167
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4445)
  AUTHORS   Thoren,L.A., Norgaard,G.A., Weischenfeldt,J., Waage,J.,
            Jakobsen,J.S., Damgaard,I., Bergstrom,F.C., Blom,A.M., Borup,R.,
            Bisgaard,H.C. and Porse,B.T.
  TITLE     UPF2 is a critical regulator of liver development, function and
            regeneration
  JOURNAL   PLoS One 5 (7), e11650 (2010)
   PUBMED   20657840
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 4445)
  AUTHORS   Woeller,C.F., Gaspari,M., Isken,O. and Maquat,L.E.
  TITLE     NMD resulting from encephalomyocarditis virus IRES-directed
            translation initiation seems to be restricted to CBP80/20-bound
            mRNA
  JOURNAL   EMBO Rep 9 (5), 446-451 (2008)
   PUBMED   18369367
REFERENCE   4  (bases 1 to 4445)
  AUTHORS   Azzalin,C.M., Reichenbach,P., Khoriauli,L., Giulotto,E. and
            Lingner,J.
  TITLE     Telomeric repeat containing RNA and RNA surveillance factors at
            mammalian chromosome ends
  JOURNAL   Science 318 (5851), 798-801 (2007)
   PUBMED   17916692
REFERENCE   5  (bases 1 to 4445)
  AUTHORS   Kunz,J.B., Neu-Yilik,G., Hentze,M.W., Kulozik,A.E. and Gehring,N.H.
  TITLE     Functions of hUpf3a and hUpf3b in nonsense-mediated mRNA decay and
            translation
  JOURNAL   RNA 12 (6), 1015-1022 (2006)
   PUBMED   16601204
REFERENCE   6  (bases 1 to 4445)
  AUTHORS   Ohnishi,T., Yamashita,A., Kashima,I., Schell,T., Anders,K.R.,
            Grimson,A., Hachiya,T., Hentze,M.W., Anderson,P. and Ohno,S.
  TITLE     Phosphorylation of hUPF1 induces formation of mRNA surveillance
            complexes containing hSMG-5 and hSMG-7
  JOURNAL   Mol Cell 12 (5), 1187-1200 (2003)
   PUBMED   14636577
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from CH473990.1.
            
            On or before Oct 4, 2007 this sequence version replaced
            XM_341556.3, XM_001071022.1.
            
            ##Evidence-Data-START##
            RNAseq introns :: mixed sample support SAMD00132261, SAMD00132262
                              [ECO:0006172]
            ##Evidence-Data-END##
FEATURES             Location/Qualifiers
     source          1..4445
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /db_xref="taxon:10116"
                     /chromosome="17"
                     /map="17q12.3"
     gene            1..4445
                     /gene="Upf2"
                     /note="UPF2, regulator of nonsense mediated mRNA decay"
                     /db_xref="GeneID:361271"
                     /db_xref="RGD:1309178"
     exon            1..108
                     /gene="Upf2"
                     /inference="alignment:Splign:2.1.0"
     exon            109..488
                     /gene="Upf2"
                     /inference="alignment:Splign:2.1.0"
     CDS             127..3933
                     /gene="Upf2"
                     /note="UPF2 regulator of nonsense transcripts homolog"
                     /codon_start=1
                     /product="regulator of nonsense transcripts 2"
                     /protein_id="NP_001101891.1"
                     /db_xref="GeneID:361271"
                     /db_xref="RGD:1309178"
                     /translation="MPAERKKSASMEEKESLLNNKEKDCSERRPVSSKEKSKDDLKIT
                     AKKEVSKVPEDKKKKLEEDKRKKEDKERKKKEEEKVKAEEELKKKEEEEKKKQEEEER
                     KKQEEQAKRQQEEAAAQLKEKEESLQLHQEAWERHQLRKELRSKNQNAPDNRPEENFF
                     SRLDSSLKKNTAFVKKLKTITEQQRDSLSHDFNGLNLSKYIGEAVASIVEAKLKISDV
                     NCAVHLCSLFHQRYADFAPSLLQVWKKHFEARKEEKTPNITKLRTDLRFIAELTIVGI
                     FTDKEGLSLIYEQLKSIINADRESHTHVSVVISFCRHCGDDIAGLVPRKVKSAAEKFN
                     LNFPPSEIISPEKQQPFQNLLKEYFTSLTKHLKRDHRELQNTERQNRRILHSKGELSE
                     DRHKQYEEFAMSYQKLLANSQSLADLLDENMPDLPQDKPTPEEHGPGIDIFTPGKPGE
                     YDLEGGIWEDEDARNFYENLIDLKAFVPAILFKDNEKSQNKDSSKDDSKEAKEPKDNK
                     EASSPDDLELELENLEINDDTLELEGGDEAEDLTKKLLDEQEQEDEEASTGSHLKLIV
                     DAFLQQLPNCVNRDLIDKAAMDFCMNMNTKANRKKLVRALFIVPRQRLDLLPFYARLV
                     ATLHPCMSDVAEDLCSMLRGDFRFHVRKKDQINIETKNKTVRFIGELTKFKMFTKNDT
                     LHCLKMLLSDFSHHHIEMACTLLETCGRFLFRSPESHLRTSVLLEQMMRKKQAMHLDA
                     RYVTMVENAYYYCNPPPAEKTVRRKRPPLQEYVRKLLYKDLSKVTTEKVLRQMRKLPW
                     QDQEVKDYVICCMINIWNVKYNSIHCVANLLAGLVLYQEDVGIHVVDGVLEDIRLGME
                     VNQPKFNQRRISSAKFLGELYNYRMVESAVIFRTLYSFTSFGVNPDGSPSSLDPPEHL
                     FRIRLVCTILDTCGQYFDRGSSKRKLDCFLVYFQRYVWWKKSLEVWTKDHPFPIDIDY
                     MISDTLELLRPKIKLCNSLEESIRQVQDLEREFLIKLGLVNDKESKDSMTEGENLEED
                     EEEEEGGAETEEQSGNESEVNEPEEEEGSDDEDEGEEEEEENTDYLTDSNKENETDEE
                     NAEVMIKGGGLKHVPCVEDEDFIQALDKMMLENLQRSGESVKVHQLDVAIPLHLKSQL
                     RKGPPLGGGEGETESADTMPFVMLTRKGNKQQFKILNVPMSSQLAANHWNQQQAEQEE
                     RMRMKKLTLDINERQEQEDYQEMLQSLAQRPAPANTNRERRPRYQHPKGAPNADLIFK
                     TGGRRR"
     exon            489..1268
                     /gene="Upf2"
                     /inference="alignment:Splign:2.1.0"
     exon            1269..1429
                     /gene="Upf2"
                     /inference="alignment:Splign:2.1.0"
     exon            1430..1624
                     /gene="Upf2"
                     /inference="alignment:Splign:2.1.0"
     exon            1625..1774
                     /gene="Upf2"
                     /inference="alignment:Splign:2.1.0"
     exon            1775..1878
                     /gene="Upf2"
                     /inference="alignment:Splign:2.1.0"
     exon            1879..1964
                     /gene="Upf2"
                     /inference="alignment:Splign:2.1.0"
     exon            1965..2073
                     /gene="Upf2"
                     /inference="alignment:Splign:2.1.0"
     exon            2074..2187
                     /gene="Upf2"
                     /inference="alignment:Splign:2.1.0"
     exon            2188..2304
                     /gene="Upf2"
                     /inference="alignment:Splign:2.1.0"
     exon            2305..2490
                     /gene="Upf2"
                     /inference="alignment:Splign:2.1.0"
     exon            2491..2694
                     /gene="Upf2"
                     /inference="alignment:Splign:2.1.0"
     exon            2695..2970
                     /gene="Upf2"
                     /inference="alignment:Splign:2.1.0"
     exon            2971..3154
                     /gene="Upf2"
                     /inference="alignment:Splign:2.1.0"
     exon            3155..3294
                     /gene="Upf2"
                     /inference="alignment:Splign:2.1.0"
     exon            3295..3396
                     /gene="Upf2"
                     /inference="alignment:Splign:2.1.0"
     exon            3397..3495
                     /gene="Upf2"
                     /inference="alignment:Splign:2.1.0"
     exon            3496..3660
                     /gene="Upf2"
                     /inference="alignment:Splign:2.1.0"
     exon            3661..3802
                     /gene="Upf2"
                     /inference="alignment:Splign:2.1.0"
     exon            3803..3923
                     /gene="Upf2"
                     /inference="alignment:Splign:2.1.0"
     exon            3924..4445
                     /gene="Upf2"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 ggaaggcggg ccctcggctg cgagataggt ggggggaggg gaggggagag cccgagctct
       61 ggagttggtg ctgggaaacc cggggctaat gttgacaaca ggcactagat tgtcctgggt
      121 cacataatgc cagctgagcg gaaaaagtca gcaagtatgg aggaaaaaga atctttacta
      181 aacaacaagg aaaaagactg cagtgagagg cggccagtga gcagcaagga gaaatcaaaa
      241 gacgatctca agatcactgc caagaaggag gtcagtaagg tcccagaaga caaaaagaag
      301 aaactggaag aagataagag aaaaaaggaa gacaaggaac gtaagaaaaa agaggaagag
      361 aaggtgaagg cagaggaaga gttgaagaag aaggaagagg aagaaaagaa aaaacaggaa
      421 gaggaagaga ggaaaaagca ggaggagcag gccaagcggc agcaggaaga agcagctgcc
      481 cagctgaaag agaaagaaga atctcttcag cttcatcagg aggcgtggga acgccatcaa
      541 ctacgaaagg aactccgtag caaaaaccaa aatgctccag acaaccgacc agaggaaaat
      601 ttctttagcc gcctagattc gagcttaaag aaaaatactg cttttgtcaa gaaactaaaa
      661 acaattacag aacaacagag agactccttg tctcatgatt ttaatggcct gaatttaagc
      721 aaatatattg gggaagccgt agcttccatt gtggaagcaa aattaaaaat ctctgacgtg
      781 aactgtgccg tgcacctctg ctctctcttt caccagcggt acgctgactt tgcaccctca
      841 cttcttcagg tgtggaaaaa acattttgaa gcaaggaaag aggagaaaac gcccaacatt
      901 accaagctaa gaactgactt gcgtttcatt gcagaattga caatagtggg aatcttcact
      961 gacaaggaag gtctttcctt aatctatgaa cagctaaaaa gtattattaa tgctgatcga
     1021 gaatcccaca ctcatgtgtc tgtggtgatt agtttctgtc gtcattgtgg agatgatatt
     1081 gctggacttg taccgaggaa agtaaagagt gctgcagaga agtttaattt gaactttcct
     1141 cctagtgaga taattagccc agagaagcag cagcctttcc agaatctttt aaaagagtac
     1201 tttacgtctc tgaccaaaca cctgaaaagg gaccacaggg agcttcagaa tactgagagg
     1261 caaaacaggc gtattctgca ctctaaaggc gagctaagtg aagacaggca taaacagtat
     1321 gaagagttcg ccatgtctta ccagaagctg ctggcaaatt ctcaatcctt agccgacctt
     1381 ttggatgaaa atatgccaga tcttcctcag gacaaaccga caccagaaga gcatggacct
     1441 ggaatcgata tatttacacc tggaaaacct ggagaatatg acttagaagg tggcatatgg
     1501 gaagacgaag acgctcggaa tttttatgaa aacctcatcg atttgaaagc atttgttcca
     1561 gccatcttgt ttaaagacaa tgaaaaaagt cagaacaaag attctagcaa agatgattcc
     1621 aaagaggcaa aagaaccaaa ggataataag gaagcatcaa gtcccgatga tttggaactt
     1681 gagttggaga atttagaaat taatgatgac acactggagt tagaaggtgg agatgaagct
     1741 gaagatctta caaagaaact ccttgatgaa caagaacaag aagatgaaga agccagcact
     1801 ggatctcacc tcaaactcat agtggatgct ttcctccagc agctgcccaa ctgtgtcaac
     1861 cgagacctga ttgacaaggc agccatggac ttttgcatga acatgaacac aaaggcaaac
     1921 aggaagaagt tggttcgggc gctcttcata gttcctaggc aaaggttgga tttgctccca
     1981 ttttatgcaa gattggttgc tacattgcat ccctgcatgt ctgatgtagc agaggatctt
     2041 tgttccatgc tgagggggga tttcagattt catgttcgaa aaaaggacca gatcaacatt
     2101 gaaacaaaga ataaaactgt ccgttttatt ggagaactaa ccaagtttaa gatgttcacc
     2161 aaaaatgata cactgcattg tctaaagatg cttctgtcag acttttctca tcatcatatt
     2221 gaaatggcat gtaccctact ggagacctgt ggacggtttc ttttccgatc tccagaatca
     2281 cacctgagga ccagtgtgct tttggagcaa atgatgagaa agaagcaagc aatgcacctg
     2341 gacgcgcgct acgttacaat ggtggagaac gcgtattact actgcaaccc accaccagcc
     2401 gagaagacag tgagaaggaa gcggcctcct cttcaggagt atgtccgcaa acttctgtac
     2461 aaggatctct ctaaggtcac cacggaaaag gttttgagac agatgcgaaa gttgccctgg
     2521 caggaccaag aagttaaaga ctatgtcatt tgttgtatga taaacatttg gaatgtgaaa
     2581 tacaatagta ttcactgtgt agccaacctc ctagcaggac tagtgcttta ccaggaggat
     2641 gttgggatcc acgttgtgga cggagtactt gaagatattc gattgggaat ggaggttaat
     2701 caacctaaat ttaaccagag gcgcatcagt agtgccaagt tcttaggaga actttataat
     2761 tacagaatgg tcgaatcggc tgttattttc agaactcttt attcttttac ttcatttggt
     2821 gtcaaccctg acgggtctcc aagttccctg gaccctcctg agcatctgtt tagaattaga
     2881 ctagtctgca ctattttgga tacctgtggc cagtactttg acagaggttc cagtaaaaga
     2941 aaacttgact gcttccttgt atattttcag cgttatgttt ggtggaagaa aagtttggag
     3001 gtttggacaa aagaccatcc atttcctatt gatatagatt acatgatcag tgatacacta
     3061 gaactgctaa gaccaaagat caaactctgt aattctctgg aagaatccat caggcaggta
     3121 caagacttgg aacgagaatt cttaataaaa ctaggcctag taaatgacaa agagtccaaa
     3181 gattctatga cagaagggga aaatcttgaa gaggatgaag aagaagaaga aggaggagct
     3241 gagacagagg aacagtctgg aaatgagagt gaagtaaacg agccagaaga agaagagggt
     3301 tctgatgatg aagacgaggg agaggaggag gaagaagaga atacagatta cctcacagat
     3361 tccaacaagg agaacgagac tgatgaagag aatgctgagg tgatgattaa gggaggcgga
     3421 ctgaagcatg ttccttgtgt agaagatgag gacttcattc aagctctgga caaaatgatg
     3481 ctagaaaacc ttcagcgaag tggtgaatct gtgaaagtac accaacttga tgttgctatt
     3541 cctttgcatc tcaaaagcca gctgaggaaa gggcccccac ttggtggtgg ggaaggagag
     3601 acagagtctg cagacacgat gccgtttgtc atgctgacaa ggaaaggcaa taaacagcag
     3661 tttaagattc tcaatgtgcc catgtcatcc caacttgctg caaatcactg gaaccagcaa
     3721 caagcagaac aagaggagag gatgaggatg aaaaagctca ccttagacat caacgaacga
     3781 caagaacaag aagattatca agaaatgttg cagtctctcg cacagcgccc agctccagcg
     3841 aacactaatc gtgagcggcg gcctcgttac caacatccaa agggagcgcc taatgcagat
     3901 ctaatcttta agactggtgg gaggagacgt tgatccagca gcacgtgtca tttcattagg
     3961 tcctgtatct gatgttgtgg atagtggagt cctccagcaa ttgaatgaga gcagcggaca
     4021 catctcagca tgtcggtcta gagagttgcg aatctaaacc tgggacaggc tggggccatg
     4081 aggcagaaac accagcctct gccaacaccg gaacaagccg acgcttccag acaaggcaga
     4141 aaggcctttt gtaatggaaa tcacgtgagg gttaatcttc tcttgagaat ggcagtcaag
     4201 aaatgagaag gttcacttga ctgctgagag ctacaccagg aagagcgtcc gtgaggtgac
     4261 tgagccggag aggaaacggt tgagatggga tggtatgggg gaaatgaact tgagttttaa
     4321 acttgattta agttacagtg tctctgaatt gaacatccca tgttggaaga agatacattt
     4381 gggggctcca ggactacagt agaacagtat agagcaagca gtaaaatctt ctagtaaaac
     4441 ttcca
//
