LOCUS       NM_028761               2902 bp    mRNA    linear   ROD 30-APR-2024
DEFINITION  Mus musculus poly(A)-specific ribonuclease (deadenylation nuclease)
            (Parn), transcript variant 1, mRNA.
ACCESSION   NM_028761
VERSION     NM_028761.3
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 2902)
  AUTHORS   Adams,D.J., Barlas,B., McIntyre,R.E., Salguero,I., van der
            Weyden,L., Barros,A., Vicente,J.R., Karimpour,N., Haider,A.,
            Ranzani,M., Turner,G., Thompson,N.A., Harle,V., Olvera-Leon,R.,
            Robles-Espinoza,C.D., Speak,A.O., Geisler,N., Weninger,W.J.,
            Geyer,S.H., Hewinson,J., Karp,N.A., Fu,B., Yang,F., Kozik,Z.,
            Choudhary,J., Yu,L., van Ruiten,M.S., Rowland,B.D., Lelliott,C.J.,
            Del Castillo Velasco-Herrera,M., Verstraten,R., Bruckner,L.,
            Henssen,A.G., Rooimans,M.A., de Lange,J., Mohun,T.J., Arends,M.J.,
            Kentistou,K.A., Coelho,P.A., Zhao,Y., Zecchini,H., Perry,J.R.B.,
            Jackson,S.P. and Balmus,G.
  CONSRTM   Sanger Mouse Genetics Project
  TITLE     Genetic determinants of micronucleus formation in vivo
  JOURNAL   Nature 627 (8002), 130-136 (2024)
   PUBMED   38355793
REFERENCE   2  (bases 1 to 2902)
  AUTHORS   Wang,Y., Yasmin,L., Li,L., Gao,P., Xu,X., Sun,X. and Godbout,R.
  TITLE     DDX1 vesicles control calcium-dependent mitochondrial activity in
            mouse embryos
  JOURNAL   Nat Commun 13 (1), 3794 (2022)
   PUBMED   35778392
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 2902)
  AUTHORS   Benyelles,M., Episkopou,H., O'Donohue,M.F., Kermasson,L.,
            Frange,P., Poulain,F., Burcu Belen,F., Polat,M., Bole-Feysot,C.,
            Langa-Vives,F., Gleizes,P.E., de Villartay,J.P., Callebaut,I.,
            Decottignies,A. and Revy,P.
  TITLE     Impaired telomere integrity and rRNA biogenesis in PARN-deficient
            patients and knock-out models
  JOURNAL   EMBO Mol Med 11 (7), e10201 (2019)
   PUBMED   31273937
  REMARK    GeneRIF: Impaired telomere integrity and rRNA biogenesis in
            PARN-deficient patients and knock-out models.
REFERENCE   4  (bases 1 to 2902)
  AUTHORS   Udagawa,T., Swanger,S.A., Takeuchi,K., Kim,J.H., Nalavadi,V.,
            Shin,J., Lorenz,L.J., Zukin,R.S., Bassell,G.J. and Richter,J.D.
  TITLE     Bidirectional control of mRNA translation and synaptic plasticity
            by the cytoplasmic polyadenylation complex
  JOURNAL   Mol Cell 47 (2), 253-266 (2012)
   PUBMED   22727665
  REMARK    GeneRIF: poly(A) polymerase Gld2, deadenylase PARN, and translation
            inhibitory factor neuroguidin (Ngd) are components of a dendritic
            CPEB-associated polyadenylation apparatus
REFERENCE   5  (bases 1 to 2902)
  AUTHORS   Lee,J.E., Lee,J.Y., Trembly,J., Wilusz,J., Tian,B. and Wilusz,C.J.
  TITLE     The PARN deadenylase targets a discrete set of mRNAs for decay and
            regulates cell motility in mouse myoblasts
  JOURNAL   PLoS Genet 8 (8), e1002901 (2012)
   PUBMED   22956911
  REMARK    GeneRIF: these data indicate that PARN modulates decay of a defined
            set of mRNAs in mammalian cells and implicate this deadenylase in
            coordinating control of genes required for cell movement.
REFERENCE   6  (bases 1 to 2902)
  AUTHORS   Wu,M., Nilsson,P., Henriksson,N., Niedzwiecka,A., Lim,M.K.,
            Cheng,Z., Kokkoris,K., Virtanen,A. and Song,H.
  TITLE     Structural basis of m(7)GpppG binding to poly(A)-specific
            ribonuclease
  JOURNAL   Structure 17 (2), 276-286 (2009)
   PUBMED   19217398
  REMARK    GeneRIF: A modeled PARN, which shows that the RRM domain from one
            subunit and the R3H domain from the other subunit enclose the
            active site.
REFERENCE   7  (bases 1 to 2902)
  AUTHORS   Nagata,T., Suzuki,S., Endo,R., Shirouzu,M., Terada,T., Inoue,M.,
            Kigawa,T., Kobayashi,N., Guntert,P., Tanaka,A., Hayashizaki,Y.,
            Muto,Y. and Yokoyama,S.
  TITLE     The RRM domain of poly(A)-specific ribonuclease has a noncanonical
            binding site for mRNA cap analog recognition
  JOURNAL   Nucleic Acids Res 36 (14), 4754-4767 (2008)
   PUBMED   18641416
  REMARK    GeneRIF: Solution structures of the cap-binding domain of mouse
            PARN with and without the m(7)GpppG cap analog reveal a novel
            cap-binding mode.
REFERENCE   8  (bases 1 to 2902)
  AUTHORS   Mauxion,F., Faux,C. and Seraphin,B.
  TITLE     The BTG2 protein is a general activator of mRNA deadenylation
  JOURNAL   EMBO J 27 (7), 1039-1048 (2008)
   PUBMED   18337750
REFERENCE   9  (bases 1 to 2902)
  AUTHORS   Nilsson,P., Henriksson,N., Niedzwiecka,A., Balatsos,N.A.,
            Kokkoris,K., Eriksson,J. and Virtanen,A.
  TITLE     A multifunctional RNA recognition motif in poly(A)-specific
            ribonuclease with cap and poly(A) binding properties
  JOURNAL   J Biol Chem 282 (45), 32902-32911 (2007)
   PUBMED   17785461
REFERENCE   10 (bases 1 to 2902)
  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
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC154607.2 and AC154564.3.
            
            On Apr 30, 2007 this sequence version replaced NM_028761.2.
            
            Transcript Variant: This variant (1) 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 :: AK045181.1, AK004572.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMN00849374,
                                           SAMN00849375 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-160               AC154607.2         61974-62133         c
            161-238             AC154607.2         61497-61574         c
            239-318             AC154607.2         59865-59944         c
            319-386             AC154607.2         58784-58851         c
            387-468             AC154607.2         58619-58700         c
            469-529             AC154607.2         50879-50939         c
            530-674             AC154607.2         48412-48556         c
            675-740             AC154607.2         46608-46673         c
            741-779             AC154607.2         45761-45799         c
            780-822             AC154607.2         44598-44640         c
            823-903             AC154607.2         42382-42462         c
            904-960             AC154607.2         41206-41262         c
            961-1038            AC154607.2         34216-34293         c
            1039-1082           AC154607.2         25493-25536         c
            1083-1125           AC154607.2         23546-23588         c
            1126-1201           AC154607.2         22337-22412         c
            1202-1312           AC154607.2         20077-20187         c
            1313-1382           AC154607.2         19472-19541         c
            1383-1438           AC154607.2         1214-1269           c
            1439-1525           AC154607.2         111-197             c
            1526-1600           AC154564.3         2942-3016
            1601-1769           AC154564.3         39306-39474
            1770-1963           AC154564.3         64796-64989
            1964-2902           AC154564.3         67142-68080
FEATURES             Location/Qualifiers
     source          1..2902
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="16"
                     /map="16 9.32 cM"
     gene            1..2902
                     /gene="Parn"
                     /gene_synonym="1200003I18Rik; DAN"
                     /note="poly(A)-specific ribonuclease (deadenylation
                     nuclease)"
                     /db_xref="GeneID:74108"
                     /db_xref="MGI:MGI:1921358"
     exon            1..160
                     /gene="Parn"
                     /gene_synonym="1200003I18Rik; DAN"
                     /inference="alignment:Splign:2.1.0"
     CDS             142..2016
                     /gene="Parn"
                     /gene_synonym="1200003I18Rik; DAN"
                     /EC_number="3.1.13.4"
                     /note="isoform 1 is encoded by transcript variant 1;
                     poly(A)-specific ribonuclease PARN; polyadenylate-specific
                     ribonuclease"
                     /codon_start=1
                     /product="poly(A)-specific ribonuclease PARN isoform 1"
                     /protein_id="NP_083037.1"
                     /db_xref="CCDS:CCDS37259.1"
                     /db_xref="GeneID:74108"
                     /db_xref="MGI:MGI:1921358"
                     /translation="MEIIRSNFKINLHKVYQAIEEADFFAIDGEFSGISNGPSVTALT
                     SGFDTPEERYQKLKKHSMDFLLFQFGLCAFKYDHTDSKHVTKSFNFYVFPKPFSRSSP
                     DVKFVCQSSSIDFLASQGFDFNKVFCSGIPYLNQEEERQLREQFDEKRSQANGAGALA
                     KCPVTIPEDQKKFIDQVIEKIEDFLQSEEKRSLELDPCTGFQRKLIYQTLSWKYPKGI
                     HVETLETDKKERHIVISKVDEEERKRREQEKYTKEQEELNDAVGFSRVIHAIANSGKL
                     VVGHNMLLDVMHTIHQFYCPLPADLNEFKEMAICVFPRLLDTKLMASTQPFKDIINNT
                     SLAELEKRLKETPFDPPKVESAEGFPSYDTASEQLHEAGYDAYITGLCFISMANYLGS
                     LLSPPKMCVSARSKLIEPFFNKLFLMRVMDIPYLNLEGPDLQPKRDHVLHVTFPKEWK
                     TSDLYQLFSAFGNIQISWIDDTSAFVSLSQPEQVQIAVNTSKYAESYRIQTYAEYVGK
                     KQKGKQVKRKWTEDSWKEVDRKRPHMQGPCYHSNSFTAAGMLGKRTLSPDPREAALED
                     RESEEVSDSELEQTDSCTDPLPEGRKKSKKLKRMKKELSLAGSVSDSPAVLFEVPDTW
                     "
     exon            161..238
                     /gene="Parn"
                     /gene_synonym="1200003I18Rik; DAN"
                     /inference="alignment:Splign:2.1.0"
     exon            239..318
                     /gene="Parn"
                     /gene_synonym="1200003I18Rik; DAN"
                     /inference="alignment:Splign:2.1.0"
     exon            319..386
                     /gene="Parn"
                     /gene_synonym="1200003I18Rik; DAN"
                     /inference="alignment:Splign:2.1.0"
     exon            387..468
                     /gene="Parn"
                     /gene_synonym="1200003I18Rik; DAN"
                     /inference="alignment:Splign:2.1.0"
     exon            469..529
                     /gene="Parn"
                     /gene_synonym="1200003I18Rik; DAN"
                     /inference="alignment:Splign:2.1.0"
     exon            530..674
                     /gene="Parn"
                     /gene_synonym="1200003I18Rik; DAN"
                     /inference="alignment:Splign:2.1.0"
     exon            675..740
                     /gene="Parn"
                     /gene_synonym="1200003I18Rik; DAN"
                     /inference="alignment:Splign:2.1.0"
     exon            741..779
                     /gene="Parn"
                     /gene_synonym="1200003I18Rik; DAN"
                     /inference="alignment:Splign:2.1.0"
     exon            780..822
                     /gene="Parn"
                     /gene_synonym="1200003I18Rik; DAN"
                     /inference="alignment:Splign:2.1.0"
     exon            823..903
                     /gene="Parn"
                     /gene_synonym="1200003I18Rik; DAN"
                     /inference="alignment:Splign:2.1.0"
     exon            904..960
                     /gene="Parn"
                     /gene_synonym="1200003I18Rik; DAN"
                     /inference="alignment:Splign:2.1.0"
     exon            961..1038
                     /gene="Parn"
                     /gene_synonym="1200003I18Rik; DAN"
                     /inference="alignment:Splign:2.1.0"
     exon            1039..1082
                     /gene="Parn"
                     /gene_synonym="1200003I18Rik; DAN"
                     /inference="alignment:Splign:2.1.0"
     exon            1083..1125
                     /gene="Parn"
                     /gene_synonym="1200003I18Rik; DAN"
                     /inference="alignment:Splign:2.1.0"
     exon            1126..1201
                     /gene="Parn"
                     /gene_synonym="1200003I18Rik; DAN"
                     /inference="alignment:Splign:2.1.0"
     exon            1202..1312
                     /gene="Parn"
                     /gene_synonym="1200003I18Rik; DAN"
                     /inference="alignment:Splign:2.1.0"
     exon            1313..1382
                     /gene="Parn"
                     /gene_synonym="1200003I18Rik; DAN"
                     /inference="alignment:Splign:2.1.0"
     exon            1383..1438
                     /gene="Parn"
                     /gene_synonym="1200003I18Rik; DAN"
                     /inference="alignment:Splign:2.1.0"
     exon            1439..1525
                     /gene="Parn"
                     /gene_synonym="1200003I18Rik; DAN"
                     /inference="alignment:Splign:2.1.0"
     exon            1526..1600
                     /gene="Parn"
                     /gene_synonym="1200003I18Rik; DAN"
                     /inference="alignment:Splign:2.1.0"
     exon            1601..1769
                     /gene="Parn"
                     /gene_synonym="1200003I18Rik; DAN"
                     /inference="alignment:Splign:2.1.0"
     exon            1770..1963
                     /gene="Parn"
                     /gene_synonym="1200003I18Rik; DAN"
                     /inference="alignment:Splign:2.1.0"
     exon            1964..2902
                     /gene="Parn"
                     /gene_synonym="1200003I18Rik; DAN"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 gcagcggcgc gcgctgtttc cggaagtgtc ctgtgctgtt tcgtggcggc ctccgacatc
       61 cccacgctgc ttttgctgcg gaactctgcg cgtggaccgg cgtcagcctg ggcggggcca
      121 aggttccgtc tgcgccgcag gatggagata atccggagca attttaagat taatcttcac
      181 aaagtgtacc aggccataga ggaggctgac ttcttcgcca tcgatgggga gttttcagga
      241 atcagcaatg gaccctcagt aacagcatta acaagtggtt ttgacacccc agaagagaga
      301 tatcagaagc ttaaaaagca ttccatggac tttttgctgt ttcagtttgg cctttgtgct
      361 tttaagtatg accacacaga ttccaagcat gtaacgaagt catttaactt ctatgttttc
      421 cccaagcctt tcagtaggtc ctcaccagat gtcaagtttg tttgccagag ctccagcatt
      481 gacttcctgg cgagccaagg atttgacttt aataaagtgt tttgcagtgg gattccatat
      541 ctgaatcagg aagaagaaag gcagctgaga gagcaattcg atgaaaaacg gtctcaagcc
      601 aatggggcag gagctctggc aaaatgtcct gtgaccatcc ctgaggatca gaagaagttt
      661 attgaccaag taatagagaa gatagaggat ttcctacaaa gtgaagagaa gaggagcctg
      721 gaacttgacc catgcactgg gttccaaaga aaacttattt atcagacttt gagttggaag
      781 tatcctaaag gcattcatgt tgagacatta gagactgaca agaaggaaag acatatagtt
      841 atcagcaagg tggatgaaga agaacgcaaa aggagagagc aggagaagta cacaaaggag
      901 caggaggagc tgaatgatgc tgtggggttt tcaagagtca tccatgccat tgctaattcg
      961 gggaagctgg ttgtgggaca caacatgctc ttggatgtca tgcatacgat tcatcagttc
     1021 tactgccccc tgcctgcgga cctgaatgag tttaaggaga tggcaatatg tgtcttcccc
     1081 agactcttgg atactaagtt gatggccagc acacagcctt ttaaggatat cattaacaac
     1141 acatcccttg cagagttgga aaagcggttg aaagagacac cttttgaccc tcccaaagtt
     1201 gaaagtgcag aaggctttcc aagctacgac acagcttctg agcagcttca tgaggcgggg
     1261 tacgatgcct acatcacagg gctctgcttc atctccatgg caaattactt aggttcttta
     1321 ctcagtcctc caaaaatgtg tgtgtctgcc agatcaaagc tcattgaacc cttttttaac
     1381 aagttatttc ttatgagggt catggatatt ccctatttaa acttggaagg gccagacttg
     1441 cagcctaagc gggaccatgt tctccacgtg accttcccca aagagtggaa aaccagcgac
     1501 ctgtaccagc tcttcagcgc cttcggtaac attcagatat cctggattga tgatacatca
     1561 gccttcgttt ctctcagcca gccagaacaa gtacaaattg ccgttaatac cagcaagtac
     1621 gctgaaagtt atcggatcca gacctatgct gagtatgtgg gaaagaagca gaaaggcaag
     1681 caggtcaaga ggaagtggac agaagacagt tggaaggagg tggacagaaa gcggccccac
     1741 atgcagggcc cctgttacca cagcaacagc ttcacagccg ctggcatgct tggaaagagg
     1801 acgctgagtc ccgacccaag ggaagctgcc ttggaggaca gagaatcaga ggaggtatct
     1861 gactcggagc ttgaacagac agattcctgt acagaccccc tcccagaggg aaggaaaaag
     1921 tccaagaagt taaaacgaat gaagaaggag ctttccttgg caggaagtgt ctcggatagc
     1981 cctgccgtgc tctttgaagt ccctgacaca tggtagtgga gtactgctgc gacagcccag
     2041 cctacctgct tggaagccat actgtagaca cttaaccaga tatggcctgg gggagttttg
     2101 gaaccagatt gtttcctgca aagctacttt ttactgtttt ggctgcatct attgtccctt
     2161 ttagtctaaa ctgacctttg gcacacgtcg tggttgaggg cttctgcaag cgtgtgtgtt
     2221 attaactaat tacttcctgc tccttgaaaa cctgcctgcc ctggtgaatg ttggcaagtc
     2281 cacccaggga gtaagtcagc tgtgaaccac gccaggagag ccaacctccg gggtgttcta
     2341 ggcagatttc tgcagagctt ctcctgcccg agatgtgccc tgccatcctc ccactgctgc
     2401 ccagaaacag cacacaggct tgtcttttca gtgggagatt cctgtgctag ctcaggctca
     2461 tctcaacaga tgcccaggct ttgagagctt gttatttcaa gtttctttcc ctcagatagg
     2521 agtgtgtccc gggtgtggtg acatgtgtgt gagaagctgg ctcttctgtt cctacgcaca
     2581 gggttcacgg tgcagcagct tctcctggtt tttactgtat gtctttgtgt gtctgtatct
     2641 gggtacatgg tgtgtgtgtg tgtctgtctg tgtgtgtgtc tgtgtgtgtg tgtatgtgtc
     2701 tgtctgtctg tctgtctgtc tgtgacagcg gcaggcctac agcatgcatc aagtcctcat
     2761 tcagacaggt ttcagtggca gagcctcact tgctcctgca ggatacccca cagcagacac
     2821 ttctggacat gtaatgcttt tgtatcatga aaataaaagt gaaaaagtaa tttcaaaaag
     2881 ctgaaattaa agaaaatttc ct
//
