LOCUS       NM_011917               3431 bp    mRNA    linear   ROD 05-JUN-2024
DEFINITION  Mus musculus 5'-3' exoribonuclease 2 (Xrn2), transcript variant 1,
            mRNA.
ACCESSION   NM_011917
VERSION     NM_011917.3
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 3431)
  AUTHORS   Krishnan,R., Lapierre,M., Gautreau,B., Nixon,K.C.J., El
            Ghamrasni,S., Patel,P.S., Hao,J., Yerlici,V.T., Guturi,K.K.N.,
            St-Germain,J., Mateo,F., Saad,A., Algouneh,A., Earnshaw,R.,
            Shili,D., Seitova,A., Miller,J., Khosraviani,N., Penn,A., Ho,B.,
            Sanchez,O., Hande,M.P., Masson,J.Y., Brown,G.W., Alaoui-Jamali,M.,
            Reynolds,J.J., Arrowsmith,C., Raught,B., Pujana,M.A., Mekhail,K.,
            Stewart,G.S., Hakem,A. and Hakem,R.
  TITLE     RNF8 ubiquitylation of XRN2 facilitates R-loop resolution and
            restrains genomic instability in BRCA1 mutant cells
  JOURNAL   Nucleic Acids Res 51 (19), 10484-10505 (2023)
   PUBMED   37697435
  REMARK    GeneRIF: RNF8 ubiquitylation of XRN2 facilitates R-loop resolution
            and restrains genomic instability in BRCA1 mutant cells.
REFERENCE   2  (bases 1 to 3431)
  AUTHORS   Viegas,J.O., Azad,G.K., Lv,Y., Fishman,L., Paltiel,T.,
            Pattabiraman,S., Park,J.E., Kaganovich,D., Sze,S.K., Rabani,M.,
            Esteban,M.A. and Meshorer,E.
  TITLE     RNA degradation eliminates developmental transcripts during murine
            embryonic stem cell differentiation via CAPRIN1-XRN2
  JOURNAL   Dev Cell 57 (24), 2731-2744 (2022)
   PUBMED   36495875
  REMARK    GeneRIF: RNA degradation eliminates developmental transcripts
            during murine embryonic stem cell differentiation via CAPRIN1-XRN2.
REFERENCE   3  (bases 1 to 3431)
  AUTHORS   Nimura,K., Yamamoto,M., Takeichi,M., Saga,K., Takaoka,K.,
            Kawamura,N., Nitta,H., Nagano,H., Ishino,S., Tanaka,T.,
            Schwartz,R.J., Aburatani,H. and Kaneda,Y.
  TITLE     Regulation of alternative polyadenylation by Nkx2-5 and Xrn2 during
            mouse heart development
  JOURNAL   Elife 5, e16030 (2016)
   PUBMED   27331609
  REMARK    GeneRIF: Nkx2-5 genetically interacts with Xrn2 because
            Nkx2-5(+/-)Xrn2(+/-), but neither Nkx2-5(+/-)nor Xrn2(+/-),
            newborns exhibited a defect in ventricular septum formation,
            suggesting that the association between Nkx2-5 and Xrn2 is
            essential for heart development.
            Publication Status: Online-Only
REFERENCE   4  (bases 1 to 3431)
  AUTHORS   Padmanabhan,K., Robles,M.S., Westerling,T. and Weitz,C.J.
  TITLE     Feedback regulation of transcriptional termination by the mammalian
            circadian clock PERIOD complex
  JOURNAL   Science 337 (6094), 599-602 (2012)
   PUBMED   22767893
REFERENCE   5  (bases 1 to 3431)
  AUTHORS   Noren Hooten,N., Kompaniez,K., Barnes,J., Lohani,A. and Evans,M.K.
  TITLE     Poly(ADP-ribose) polymerase 1 (PARP-1) binds to 8-oxoguanine-DNA
            glycosylase (OGG1)
  JOURNAL   J Biol Chem 286 (52), 44679-44690 (2011)
   PUBMED   22057269
REFERENCE   6  (bases 1 to 3431)
  AUTHORS   Wang,M. and Pestov,D.G.
  TITLE     5'-end surveillance by Xrn2 acts as a shared mechanism for
            mammalian pre-rRNA maturation and decay
  JOURNAL   Nucleic Acids Res 39 (5), 1811-1822 (2011)
   PUBMED   21036871
REFERENCE   7  (bases 1 to 3431)
  AUTHORS   Lu,Y., Liu,P., James,M., Vikis,H.G., Liu,H., Wen,W., Franklin,A.
            and You,M.
  TITLE     Genetic variants cis-regulating Xrn2 expression contribute to the
            risk of spontaneous lung tumor
  JOURNAL   Oncogene 29 (7), 1041-1049 (2010)
   PUBMED   19915612
  REMARK    GeneRIF: Genetic variants regulating Xrn2 expression in cis are
            determinants of spontaneous lung tumor susceptibility in mice and
            have genetic equivalents in lung cancer susceptibility in human
            beings.
REFERENCE   8  (bases 1 to 3431)
  AUTHORS   Bailey,P.J., Klos,J.M., Andersson,E., Karlen,M., Kallstrom,M.,
            Ponjavic,J., Muhr,J., Lenhard,B., Sandelin,A. and Ericson,J.
  TITLE     A global genomic transcriptional code associated with CNS-expressed
            genes
  JOURNAL   Exp Cell Res 312 (16), 3108-3119 (2006)
   PUBMED   16919269
REFERENCE   9  (bases 1 to 3431)
  AUTHORS   Stryke,D., Kawamoto,M., Huang,C.C., Johns,S.J., King,L.A.,
            Harper,C.A., Meng,E.C., Lee,R.E., Yee,A., L'Italien,L.,
            Chuang,P.T., Young,S.G., Skarnes,W.C., Babbitt,P.C. and Ferrin,T.E.
  TITLE     BayGenomics: a resource of insertional mutations in mouse embryonic
            stem cells
  JOURNAL   Nucleic Acids Res 31 (1), 278-281 (2003)
   PUBMED   12520002
REFERENCE   10 (bases 1 to 3431)
  AUTHORS   Shobuike,T., Sugano,S., Yamashita,T. and Ikeda,H.
  TITLE     Characterization of cDNA encoding mouse homolog of fission yeast
            dhp1+ gene: structural and functional conservation
  JOURNAL   Nucleic Acids Res 23 (3), 357-361 (1995)
   PUBMED   7885830
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AL928876.12.
            
            On Oct 4, 2017 this sequence version replaced NM_011917.2.
            
            Transcript Variant: This variant (1) represents the longest
            transcript and encodes the longest isoform (1).
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on alignments.
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC054743.1, AK167019.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849375, SAMN00849380
                                           [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
            1-198               AL928876.12        32973-33170
            199-326             AL928876.12        44482-44609
            327-438             AL928876.12        44689-44800
            439-550             AL928876.12        45169-45280
            551-609             AL928876.12        46355-46413
            610-699             AL928876.12        46489-46578
            700-772             AL928876.12        47281-47353
            773-823             AL928876.12        47569-47619
            824-981             AL928876.12        48067-48224
            982-1056            AL928876.12        49312-49386
            1057-1190           AL928876.12        49469-49602
            1191-1248           AL928876.12        49701-49758
            1249-1356           AL928876.12        49843-49950
            1357-1401           AL928876.12        54828-54872
            1402-1533           AL928876.12        56638-56769
            1534-1652           AL928876.12        58143-58261
            1653-1788           AL928876.12        60790-60925
            1789-1896           AL928876.12        61962-62069
            1897-1986           AL928876.12        62148-62237
            1987-2059           AL928876.12        62834-62906
            2060-2143           AL928876.12        67609-67692
            2144-2241           AL928876.12        69266-69363
            2242-2321           AL928876.12        69957-70036
            2322-2378           AL928876.12        71687-71743
            2379-2447           AL928876.12        81223-81291
            2448-2579           AL928876.12        81380-81511
            2580-2707           AL928876.12        83207-83334
            2708-2771           AL928876.12        88766-88829
            2772-2913           AL928876.12        94859-95000
            2914-3431           AL928876.12        97457-97974
FEATURES             Location/Qualifiers
     source          1..3431
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="2"
                     /map="2 72.63 cM"
     gene            1..3431
                     /gene="Xrn2"
                     /note="5'-3' exoribonuclease 2"
                     /db_xref="GeneID:24128"
                     /db_xref="MGI:MGI:894687"
     exon            1..198
                     /gene="Xrn2"
                     /inference="alignment:Splign:2.1.0"
     CDS             124..2979
                     /gene="Xrn2"
                     /EC_number="3.1.13.-"
                     /note="isoform 1 is encoded by transcript variant 1;
                     protein Dhm1"
                     /codon_start=1
                     /product="5'-3' exoribonuclease 2 isoform 1"
                     /protein_id="NP_036047.2"
                     /db_xref="CCDS:CCDS38258.1"
                     /db_xref="GeneID:24128"
                     /db_xref="MGI:MGI:894687"
                     /translation="MGVPAFFRWLSRKYPSIIVNCVEEKPKECNGVKIPVDASKPNPN
                     DVEFDNLYLDMNGIIHPCTHPEDKPAPKNEDEMMVAIFEYIDRLFNIVRPRRLLYMAI
                     DGVAPRAKMNQQRSRRFRASKEGMEAAVEKQRVREEILAKGGFLPPEEIKERFDSNCI
                     TPGTEFMDNLAKCLRYYIADRLNNDPGWKNLTVILSDASAPGEGEHKIMDYIRRQRAQ
                     PNHDPNTHHCLCGADADLIMLGLATHEPNFTIIREEFKPNKPKPCALCNQFGHEVKDC
                     EGLPREKKGKHDELADSLPCAEGEFIFLRLNVLREYLERELTMASLPFPFDVERSIDD
                     WVFMCFFVGNDFLPHLPSLEIREGAIDRLVNIYKNVVHKTGGYLTESGYVNLQRVQMI
                     MLAVGEVEDSIFKKRKDDEDSFRRRQKEKRKRMKRDQPAFTPSGILTPHALGSRNSPG
                     CQVASNPRQAAYEMRMQRNSSPSISPNTSFASDGSPSPLGGIKRKAEDSDSEPEPEDN
                     VRLWEAGWKQRYYKNKFDVDAADEKFRRKVVQSYVEGLCWVLRYYYQGCASWKWYYPF
                     HYAPFASDFEGIADMSSEFEKGTKPFKPLEQLMGVFPAASGNFLPPTWRKLMSDPDSS
                     IIDFYPEDFAIDLNGKKYAWQGVALLPFVDERRLRAALEEVYPDLTPEENRRNSLGGD
                     VLFVGKLHPLRDFILELYQTGSTEPVDVPPELCHGIQGTFSLDEEAILPDQTVCSPVP
                     MLRDLTQNTAVSINFKDPQFAEDYVFKAAMLPGARKPATVLKPGDWEKSSNGRQWKPQ
                     LGFNRDRRPVHLDQAAFRTLGHVTPRGSGTSVYTNTALPPANYQGNNYRPLLRGQAQI
                     PKLMSNMRPQDSWRGPPPLFQQHRFERSVGAEPLLPWNRMIQNQNAAFQPNQYQMLGG
                     PGGYPPRRDDHRGGRQGYPREGRKYPLPPPSGRYSWN"
     exon            199..326
                     /gene="Xrn2"
                     /inference="alignment:Splign:2.1.0"
     exon            327..438
                     /gene="Xrn2"
                     /inference="alignment:Splign:2.1.0"
     exon            439..550
                     /gene="Xrn2"
                     /inference="alignment:Splign:2.1.0"
     exon            551..609
                     /gene="Xrn2"
                     /inference="alignment:Splign:2.1.0"
     exon            610..699
                     /gene="Xrn2"
                     /inference="alignment:Splign:2.1.0"
     exon            700..772
                     /gene="Xrn2"
                     /inference="alignment:Splign:2.1.0"
     exon            773..823
                     /gene="Xrn2"
                     /inference="alignment:Splign:2.1.0"
     exon            824..981
                     /gene="Xrn2"
                     /inference="alignment:Splign:2.1.0"
     exon            982..1056
                     /gene="Xrn2"
                     /inference="alignment:Splign:2.1.0"
     exon            1057..1190
                     /gene="Xrn2"
                     /inference="alignment:Splign:2.1.0"
     exon            1191..1248
                     /gene="Xrn2"
                     /inference="alignment:Splign:2.1.0"
     exon            1249..1356
                     /gene="Xrn2"
                     /inference="alignment:Splign:2.1.0"
     exon            1357..1401
                     /gene="Xrn2"
                     /inference="alignment:Splign:2.1.0"
     exon            1402..1533
                     /gene="Xrn2"
                     /inference="alignment:Splign:2.1.0"
     exon            1534..1652
                     /gene="Xrn2"
                     /inference="alignment:Splign:2.1.0"
     exon            1653..1788
                     /gene="Xrn2"
                     /inference="alignment:Splign:2.1.0"
     exon            1789..1896
                     /gene="Xrn2"
                     /inference="alignment:Splign:2.1.0"
     exon            1897..1986
                     /gene="Xrn2"
                     /inference="alignment:Splign:2.1.0"
     exon            1987..2059
                     /gene="Xrn2"
                     /inference="alignment:Splign:2.1.0"
     exon            2060..2143
                     /gene="Xrn2"
                     /inference="alignment:Splign:2.1.0"
     exon            2144..2241
                     /gene="Xrn2"
                     /inference="alignment:Splign:2.1.0"
     exon            2242..2321
                     /gene="Xrn2"
                     /inference="alignment:Splign:2.1.0"
     exon            2322..2378
                     /gene="Xrn2"
                     /inference="alignment:Splign:2.1.0"
     exon            2379..2447
                     /gene="Xrn2"
                     /inference="alignment:Splign:2.1.0"
     exon            2448..2579
                     /gene="Xrn2"
                     /inference="alignment:Splign:2.1.0"
     exon            2580..2707
                     /gene="Xrn2"
                     /inference="alignment:Splign:2.1.0"
     exon            2708..2771
                     /gene="Xrn2"
                     /inference="alignment:Splign:2.1.0"
     exon            2772..2913
                     /gene="Xrn2"
                     /inference="alignment:Splign:2.1.0"
     exon            2914..3431
                     /gene="Xrn2"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3067..3072
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Xrn2"
                     /note="hexamer: AATAAA"
     polyA_site      3090
                     /gene="Xrn2"
     regulatory      3411..3416
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Xrn2"
                     /note="hexamer: AATAAA"
     polyA_site      3431
                     /gene="Xrn2"
                     /note="major polyA site"
ORIGIN      
        1 gtaacttccg gccgctgaac gcacgtggga ggaagtgctg gtgcccgcgg ctgccgctcc
       61 tgctagtctc gttggttaca ctctcccgct ggcccggctg ctgtttcgag ctgcccgctg
      121 gtcatgggag tcccggcgtt cttccgctgg ctcagccgca agtacccgtc catcattgtc
      181 aactgcgtgg aggagaagcc aaaagaatgc aacggtgtaa agattccagt tgatgccagt
      241 aaacctaatc caaatgatgt ggagtttgat aatctgtatt tggatatgaa tgggatcatc
      301 cacccctgca ctcatcctga agacaaacca gcaccaaaaa atgaagatga aatgatggtt
      361 gcaatttttg agtacattga cagacttttc aatattgtaa gaccaagaag acttctctac
      421 atggcaatag atggggtggc accacgtgca aaaatgaatc agcagcgttc aaggaggttc
      481 agagcatcaa aggaaggaat ggaagcagca gttgagaagc agcgagtcag agaggaaata
      541 cttgcaaaag gtggctttct tcctccagaa gaaataaaag aaagatttga cagcaactgt
      601 attaccccag gaactgagtt catggacaat cttgctaaat gccttcgcta ttacatagct
      661 gatcgtttaa ataatgaccc tgggtggaaa aatttgacag ttatattatc tgatgctagt
      721 gcacctggtg aaggagaaca caaaatcatg gattacatta gaagacaaag agcccagcct
      781 aaccatgacc caaatactca tcattgtttg tgtggagctg atgctgatct aattatgctt
      841 ggtcttgcta cacatgaacc taacttcacc ataatcagag aagaattcaa accaaataaa
      901 cctaaaccat gtgctctttg taatcagttt ggacacgagg tcaaggattg tgaaggtttg
      961 ccaagagaaa agaagggaaa gcatgatgaa cttgcagata gtcttccttg tgcagaaggg
     1021 gagtttatct tccttcggct gaatgtcctt cgagagtatc tggaaagaga actcaccatg
     1081 gccagcttac cattcccatt tgatgtggag aggagcattg atgactgggt gttcatgtgc
     1141 ttctttgtgg ggaatgattt ccttcctcac ttgccatcac tagagattag ggaaggtgca
     1201 attgatcgtt tggttaacat atacaaaaac gtggtacaca aaactggggg ttaccttaca
     1261 gaaagtggtt atgtcaatct gcaaagagta cagatgatca tgttagcagt tggtgaagtt
     1321 gaggatagca tttttaaaaa gagaaaagat gatgaggaca gttttagaag acgacagaaa
     1381 gaaaaaagaa agaggatgaa gagagatcaa ccagctttta ctcctagtgg aatattaaca
     1441 cctcatgcct tgggttcaag aaattcacca ggttgtcaag tagccagtaa tccaagacaa
     1501 gcagcctatg aaatgaggat gcagagaaac tctagtcctt caatatctcc taatacaagt
     1561 tttgcatctg atggctcccc atctccacta ggaggaatta agagaaaagc agaagacagt
     1621 gacagtgagc cagagccaga ggataacgtc aggttatggg aagctggttg gaagcaacga
     1681 tactacaaga acaaatttga tgtagatgca gctgatgaga aattccgacg taaggttgtt
     1741 cagtcctacg ttgaaggact gtgctgggtt cttcgctatt attaccaggg ctgtgcttcc
     1801 tggaagtggt attatccatt ccattatgca ccatttgcct cagactttga aggtattgca
     1861 gacatgtcct ctgaatttga aaagggcaca aaaccgttta agccactgga acaactaatg
     1921 ggggttttcc cagctgcaag tggtaacttt ctacctccaa catggcggaa gctcatgagt
     1981 gaccctgatt ccagtataat tgacttctat cctgaagatt ttgctattga tttgaatggg
     2041 aagaaatatg catggcaagg tgttgctcta ttgccatttg tggatgagcg aaggctgcga
     2101 gcggctctag aagaggtgta cccagacctc actccagaag agaacaggag aaatagtctt
     2161 ggaggtgatg ttttgtttgt gggaaaactt catccactac gcgacttcat tttagagctg
     2221 tatcagacgg gttccacaga gccagttgat gtgccacctg aattgtgtca cgggattcaa
     2281 gggacgtttt ctttggatga agaagccatt cttccagacc aaacagtatg ttcccctgtg
     2341 cccatgttgc gggacctgac acagaacact gcagtcagta ttaattttaa agatccacag
     2401 tttgctgaag attatgtttt taaagctgca atgcttccag gagcaagaaa gccagcaaca
     2461 gttctgaaac ctggtgactg ggaaaaatcc agcaatgggc ggcaatggaa acctcagctt
     2521 ggctttaacc gggaccggcg gcctgttcac ctggaccagg cagcctttag aactttaggc
     2581 catgttacac caagaggctc ggggacgagt gtttatacga acactgcact accacctgcc
     2641 aattaccagg ggaacaatta caggccactg ctgagaggtc aagctcagat cccaaaactt
     2701 atgtcaaata tgaggcccca agattcctgg cgaggccctc ctcctctttt ccagcagcat
     2761 agatttgaga gaagtgttgg agctgaacct ctactgccat ggaaccggat gatccaaaac
     2821 caaaatgcag cctttcagcc aaatcagtac cagatgctag gaggacctgg aggctatcca
     2881 cccagacgtg acgatcaccg aggagggaga cagggatatc ccagagaagg acggaaatac
     2941 cctttgccac caccctcggg aagatacagt tggaattagg cttttgtaaa gctttccaca
     3001 ttccttttac cagtctacat ttttatgcta tttgtggaaa ggtttctttc tcaagtagta
     3061 gtttttaata aaactacagt actttgtgta tttcttttat ctgtgtgtat atttttactg
     3121 atctgatctc actgtttcat gctgctttcc agagatgtgt atggcataat acagtgggtc
     3181 tgaatttatt attgcttgta aacacatttg acgaaattag gagtcctggg ttttcattat
     3241 ggttaaaatt caaaacagct ctatgctgat tttaatgcac attaataatt aggtatggac
     3301 attgagctgc acattctgca gacgagcata tattgctcaa catttctttg aaaacatttc
     3361 attaaagtac ttgacttaca gaaatttgtg gactttagta aaaaaataaa aataaagcta
     3421 aactttaaaa a
//
