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"
misc_feature 106..108
/gene="Upf2"
/note="upstream in-frame stop codon"
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
//