LOCUS       NM_152395               6108 bp    mRNA    linear   PRI 10-FEB-2025
DEFINITION  Homo sapiens nudix hydrolase 16 (NUDT16), transcript variant 2,
            mRNA.
ACCESSION   NM_152395
VERSION     NM_152395.3
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 6108)
  AUTHORS   Zhang,Z., Samsa,W.E. and Gong,Z.
  TITLE     NUDT16 regulates CtIP PARylation to dictate homologous
            recombination repair
  JOURNAL   Nucleic Acids Res 52 (7), 3761-3777 (2024)
   PUBMED   38324469
  REMARK    GeneRIF: NUDT16 regulates CtIP PARylation to dictate homologous
            recombination repair.
REFERENCE   2  (bases 1 to 6108)
  AUTHORS   Huang,S.S.Y., Rinchai,D., Toufiq,M., Kabeer,B.S.A., Roelands,J.,
            Hendrickx,W., Boughorbel,S., Bedognetti,D., Van Panhuys,N.,
            Chaussabel,D. and Garand,M.
  TITLE     Transcriptomic profile investigations highlight a putative role for
            NUDT16 in sepsis
  JOURNAL   J Cell Mol Med 26 (5), 1714-1721 (2022)
   PUBMED   35174610
  REMARK    GeneRIF: Transcriptomic profile investigations highlight a putative
            role for NUDT16 in sepsis.
REFERENCE   3  (bases 1 to 6108)
  AUTHORS   Peng,S., Guo,P., Lin,X., An,Y., Sze,K.H., Lau,M.H.Y., Chen,Z.S.,
            Wang,Q., Li,W., Sun,J.K., Ma,S.Y., Chan,T.F., Lau,K.F., Ngo,J.C.K.,
            Kwan,K.M., Wong,C.H., Lam,S.L., Zimmerman,S.C., Tuccinardi,T.,
            Zuo,Z., Au-Yeung,H.Y., Chow,H.M. and Chan,H.Y.E.
  TITLE     CAG RNAs induce DNA damage and apoptosis by silencing NUDT16
            expression in polyglutamine degeneration
  JOURNAL   Proc Natl Acad Sci U S A 118 (19) (2021)
   PUBMED   33947817
  REMARK    GeneRIF: CAG RNAs induce DNA damage and apoptosis by silencing
            NUDT16 expression in polyglutamine degeneration.
REFERENCE   4  (bases 1 to 6108)
  AUTHORS   Sharma,S., Grudzien-Nogalska,E., Hamilton,K., Jiao,X., Yang,J.,
            Tong,L. and Kiledjian,M.
  TITLE     Mammalian Nudix proteins cleave nucleotide metabolite caps on RNAs
  JOURNAL   Nucleic Acids Res 48 (12), 6788-6798 (2020)
   PUBMED   32432673
  REMARK    GeneRIF: Mammalian Nudix proteins cleave nucleotide metabolite caps
            on RNAs.
REFERENCE   5  (bases 1 to 6108)
  AUTHORS   Zhang,F., Lou,L., Peng,B., Song,X., Reizes,O., Almasan,A. and
            Gong,Z.
  TITLE     Nudix Hydrolase NUDT16 Regulates 53BP1 Protein by Reversing 53BP1
            ADP-Ribosylation
  JOURNAL   Cancer Res 80 (5), 999-1010 (2020)
   PUBMED   31911551
  REMARK    GeneRIF: Nudix Hydrolase NUDT16 Regulates 53BP1 Protein by
            Reversing 53BP1 ADP-Ribosylation.
            Erratum:[Cancer Res. 2022 Aug 3;82(15):2807. doi:
            10.1158/0008-5472.CAN-22-1948.. PMID: 35919993]
REFERENCE   6  (bases 1 to 6108)
  AUTHORS   Taylor,M.J. and Peculis,B.A.
  TITLE     Evolutionary conservation supports ancient origin for Nudt16, a
            nuclear-localized, RNA-binding, RNA-decapping enzyme
  JOURNAL   Nucleic Acids Res 36 (18), 6021-6034 (2008)
   PUBMED   18820299
REFERENCE   7  (bases 1 to 6108)
  AUTHORS   Zhang,J., Gao,F., Zhang,Q., Chen,Q., Qi,J. and Yan,J.
  TITLE     Crystallization and crystallographic analysis of human NUDT16
  JOURNAL   Acta Crystallogr Sect F Struct Biol Cryst Commun 64 (Pt 7), 639-640
            (2008)
   PUBMED   18607096
  REMARK    GeneRIF: Recombinant NUDT16, a decapping enzyme, has been
            crystallized. NUDT16 plays a pivotal role in U8 snoRNA stability.
REFERENCE   8  (bases 1 to 6108)
  AUTHORS   Peculis,B.A., Reynolds,K. and Cleland,M.
  TITLE     Metal determines efficiency and substrate specificity of the
            nuclear NUDIX decapping proteins X29 and H29K (Nudt16)
  JOURNAL   J Biol Chem 282 (34), 24792-24805 (2007)
   PUBMED   17567574
  REMARK    GeneRIF: X29/H29K may be the nuclear counterparts of the
            cytoplasmic decapping machinery, localized in specialized bodies
            involved in RNA decay
REFERENCE   9  (bases 1 to 6108)
  AUTHORS   Wang,A.G., Yoon,S.Y., Oh,J.H., Jeon,Y.J., Kim,M., Kim,J.M.,
            Byun,S.S., Yang,J.O., Kim,J.H., Kim,D.G., Yeom,Y.I., Yoo,H.S.,
            Kim,Y.S. and Kim,N.S.
  TITLE     Identification of intrahepatic cholangiocarcinoma related genes by
            comparison with normal liver tissues using expressed sequence tags
  JOURNAL   Biochem Biophys Res Commun 345 (3), 1022-1032 (2006)
   PUBMED   16712791
REFERENCE   10 (bases 1 to 6108)
  AUTHORS   Ghosh,T., Peterson,B., Tomasevic,N. and Peculis,B.A.
  TITLE     Xenopus U8 snoRNA binding protein is a conserved nuclear decapping
            enzyme
  JOURNAL   Mol Cell 13 (6), 817-828 (2004)
   PUBMED   15053875
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            CB121755.1 and AC010210.24.
            
            On Jun 2, 2019 this sequence version replaced NM_152395.2.
            
            Transcript Variant: This variant (2) differs in the 3' UTR and 3'
            coding region, compared to variant 1. The encoded isoform (2) is
            shorter and has a distinct C-terminus compared to 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 :: SRR1803611.47038.1,
                                           SRR1803611.92930.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000521288.2/ ENSP00000429274.2
            RefSeq Select criteria :: based on manual assertion, conservation,
                                      expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-486               CB121755.1         8-493
            487-6108            AC010210.24        146946-152567
FEATURES             Location/Qualifiers
     source          1..6108
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="3"
                     /map="3q22.1"
     gene            1..6108
                     /gene="NUDT16"
                     /note="nudix hydrolase 16"
                     /db_xref="GeneID:131870"
                     /db_xref="HGNC:HGNC:26442"
                     /db_xref="MIM:617381"
     exon            1..169
                     /gene="NUDT16"
                     /inference="alignment:Splign:2.1.0"
     CDS             32..619
                     /gene="NUDT16"
                     /EC_number="3.6.1.62"
                     /EC_number="3.6.1.64"
                     /note="isoform 2 is encoded by transcript variant 2; U8
                     snoRNA-binding protein H29K; U8 snoRNA-decapping enzyme;
                     nudix motif 16; nucleoside diphosphate-linked moiety X
                     motif 16; m7GpppN-mRNA hydrolase; IDPase; IDP phosphatase;
                     inosine diphosphate phosphatase; nudix (nucleoside
                     diphosphate linked moiety X)-type motif 16; testicular
                     tissue protein Li 129"
                     /codon_start=1
                     /product="U8 snoRNA-decapping enzyme isoform 2"
                     /protein_id="NP_689608.2"
                     /db_xref="CCDS:CCDS3070.2"
                     /db_xref="GeneID:131870"
                     /db_xref="HGNC:HGNC:26442"
                     /db_xref="MIM:617381"
                     /translation="MAGARRLELGEALALGSGWRHACHALLYAPDPGMLFGRIPLRYA
                     ILMQMRFDGRLGFPGGFVDTQDRSLEDGLNRELREELGEAAAAFRVERTDYRSSHVGS
                     GPRVVAHFYAKRLTLEELLAVEAGATRAKDHGLEVLGLVRVPLYTLRDGVGGLPTFLE
                     NSFIGSAREQLLEALQDLGLLQSGSISGLKIPAHH"
     exon            170..439
                     /gene="NUDT16"
                     /inference="alignment:Splign:2.1.0"
     exon            440..6108
                     /gene="NUDT16"
                     /inference="alignment:Splign:2.1.0"
     polyA_site      743
                     /gene="NUDT16"
                     /note="major polyA site"
     regulatory      899..904
                     /regulatory_class="polyA_signal_sequence"
                     /gene="NUDT16"
                     /note="hexamer: AATATA"
     polyA_site      919
                     /gene="NUDT16"
     regulatory      3344..3349
                     /regulatory_class="polyA_signal_sequence"
                     /gene="NUDT16"
                     /note="hexamer: ATTAAA"
     polyA_site      3364
                     /gene="NUDT16"
     regulatory      4001..4006
                     /regulatory_class="polyA_signal_sequence"
                     /gene="NUDT16"
                     /note="hexamer: AATAAA"
     polyA_site      4022
                     /gene="NUDT16"
     regulatory      6064..6069
                     /regulatory_class="polyA_signal_sequence"
                     /gene="NUDT16"
                     /note="hexamer: AATAAA"
     regulatory      6085..6090
                     /regulatory_class="polyA_signal_sequence"
                     /gene="NUDT16"
                     /note="hexamer: AATAAA"
     polyA_site      6086
                     /gene="NUDT16"
     polyA_site      6108
                     /gene="NUDT16"
ORIGIN      
        1 cttcgggaca gcagaggagc agtgtccggc catggccgga gcccgcaggc tggagctagg
       61 cgaggccctg gcgctggggt cgggctggcg tcatgcgtgc cacgctctcc tctacgcgcc
      121 ggaccctggg atgctcttcg gccgcatccc gctgcgctac gccatactga tgcagatgcg
      181 cttcgatgga cgcctgggct tccccggcgg attcgtggac acgcaggaca gaagcctaga
      241 ggacgggctg aaccgcgagc tgcgcgagga gctgggcgaa gcggctgccg ctttccgcgt
      301 ggagcgcact gactaccgca gctcccacgt cgggtcaggg ccacgcgttg tggcccactt
      361 ctatgccaag cgtctgacgc tcgaggagct gttggctgtg gaggccggcg caacacgcgc
      421 caaggaccac gggctggagg tgctgggcct ggtgcgagtg cccctgtata ccctgcggga
      481 tggtgtagga ggcctgccta ccttcctgga gaattccttt attggctctg cgcgggagca
      541 gttacttgaa gctctccagg acttgggact gctgcagtct ggctctattt caggccttaa
      601 gattccagct catcactaga ggcagccctc catggaccca tgaaaactga gatgaggacc
      661 ttggtactag ggagggaggg aaggacgtgg gaatgttttc ttattggatc tgagagatga
      721 tacatgatac cagatgaaaa gaaggagaag tgtgtaccat atgttttgag cagaggaccc
      781 tccaacttat ggcatcaggg gcaaaaagtc acagcttatc ccaggcaccc tggcaggttc
      841 tcagagcctg cctcctccct gtttatatgc gtacagcctg gtaaccccca ggcatgcaaa
      901 tatacaatct gtaacaacac acagcctgac accttcccct ggtcatgtcc agtttaacct
      961 tgaagtggca tttgtcacac taccctggtc cctgattgca aggagcttct gaagcaaggg
     1021 tgaatccttc ccacactcct ccatggttgc cctccagggt ctagcccagc ctatttgtta
     1081 gggaggatag agaaacagag caccccctgt gctttctgaa aatagacttg ctcttgtctt
     1141 gagtggtgac caaagcagtt ggctcttaaa aggtgggaga gcagcccaac caatccccaa
     1201 tccttttctt ctgaaactga gcaggaaggg taaggaagtg gctaggtctc cttggactga
     1261 gcatggacat gagtcctgtg aggactggtg tctctcctct agagctttca tctttgggat
     1321 gcctgagact ccgagactat cagaagggaa ttgacccacc ccagtctagc accaccctgc
     1381 cttcacttca tctacataaa ggtggtataa aaacatagac tggaggaggt aatccatgga
     1441 gagagaaaaa gaagagggct caggacaagg ccctgaggag gcccaatcct aaaagtttgg
     1501 gcagagggaa ccaggcacgt taaagaagac agaaagcgga ctatgcagag tgcttgtgag
     1561 ggtttcacta aaacagaggc aaaactgtcc attgaattca gtaacatgaa gtgtttgatg
     1621 actatgatgg cagcagtttc aggaagggcg gtatggaagg caggctgtac tggttgagtg
     1681 aatggaaagt tggggagtag aacgtgtgag aagttggcct tcaaggggct caggttaata
     1741 atagagagct atggagtcaa ggcatgttta agatgggagg tagagcatgc caatattgat
     1801 ggcaacagtc aagatggtgt gatgagagag atgggagggg cacaaagagg aggacccctg
     1861 aaggagcaga gtccatgaga aagaaggagg gatgggacct ttgtaggaag agacacagtc
     1921 ctgcagcctc atatggctca ataaaacaga aaggggcaag tatagaagat taggatgact
     1981 aaattaatgg ggaaatgatg aaggagtttg aatctcttct ttgtgaaatg aagtgagact
     2041 atcagctagt tgtgggtgga gtgtgttctc agaaggtatg aagtagatgt tttcctaggt
     2101 gttggaaaac aggttgatta aggcaacagc agaagggcag ggcaaggctg agctctgaga
     2161 tggtcagttt agagtaggat gctgggcact caggtgtgtg tgtgttgagt ggggctctgc
     2221 acacacctgt cttcccctca tcaggattca ggagctggga tgggtacact tactgcagtg
     2281 ttggggtttt gccagggaag taaaaggagt tgagagaaag atgggtcagt tcagaagaca
     2341 tacacaggag aaattgtagt gatgaaatgt gcagtctaag gtttaatctg accaagaaat
     2401 tggaattgaa aacaggaggt gactagggag ggattaggaa attagaggtc ttgacaagat
     2461 agaaactcca gcatggtgag gggttgggca gggaggtata tttgagccag acaggagtgc
     2521 tttggaaatt gagaggtgga gcaatctcag gtaaaggcaa aatagagggt atgacctggg
     2581 gttgctggcc agagccaggg aggagcctta agaagtgaaa tctagggttg gcgaggctgg
     2641 agggcagggt gagcctccac atgggtgctg aagcaagaaa ccgacagatg ttgaggagaa
     2701 tggtgtgacc taggagtcag catccttggt gaacaagagg agtggccaca aggccagtgg
     2761 cacctgccag aggggaaagc aggcatgaca ggatagcatc tcccaggtga gagccttttg
     2821 aggaagggag ggtgggcagt ggtctggaag cttgatgcag agcagtgtgg gtcccactgg
     2881 cagcccttgg tcttagaaga atgggagtac ccagtggggg agcagctgta caatgaggta
     2941 gactcctaga ggttaattat catctcctaa tcttaccctg acccttttgt caaacgttat
     3001 ctagattaaa cctcagtata ggcaggctgc aggaaatgga cattccagtg gcccctgggg
     3061 ttccagcctg tagcagcttc atctgtgctt tgtgcacttg gttctcagtc atctctgcaa
     3121 gggaccctga cgcctgggag atcagagcca ctgacccttt atggcactgc taacagaccc
     3181 cttccctcag gtaattctgg atccagaact cattatggga tgtaatccag gtcaacacta
     3241 ataccacttg gaaggttccg ctctgtctca ctctgcttga gtatcccact gatcagtctc
     3301 tcagtgcctg cctactgggc agctcatctg tccacttatt cgtattaaat ttgcttttta
     3361 tttaggtctc tggagatggt tgcgtgggga agagcccatg actttcctat atgatccctt
     3421 gaacatactc tccaagtcag tagattacct ctcaggcagc cttcataaaa gtgtttcact
     3481 gtactggggt ttgtgttcat ctcactcaca tagacagtct ctgggtaggc aggtgggggg
     3541 tgatacaagt tcacactctg tgtttctcct cctgttagcc attcccaccc tgctgatgtt
     3601 taaggaaagc cagggatgat gacccactta agctttcctt ggccttgtta agtccaatca
     3661 tctggggcag gaagaagaga aatgctcatt gcaatctttg acccccacta actgctgtgg
     3721 tgactttgac ccaagccctt gacctccttt tccttatctg aaatgttgct gtgattcctg
     3781 tggtgagatc agatgaggca gcacttggga taagcttgca gagatgcatt gagcggtatg
     3841 aaagtacagg atgctatgta ctttcctgct tcacagcaca ttttgtttct tgcaaggtga
     3901 gtggcccagc cgcctctcca caaacacgtg tttctgcctt tctcagcata atcagcaaga
     3961 tgttcccact tctcagcatt gcacttttct gctggtgcag aataaaaaca ctttgagccc
     4021 caccctgtcc tgagacaaag tcctctgtgg tcacttggca tatggcaaag ctgctgctgt
     4081 gggctggaac atttgaggca acagtgactt cctcctttcc tagttaccgg aacccttaga
     4141 gctgggagcc ggccagtgaa acagacaagg ggaggggaag agaagaggga aggcatgttt
     4201 cctatatgag tttcagtttg ttgcacagaa atgtttttga aacctttatc tccaatagaa
     4261 tcacaaacgg gtgtcagaga gtcaaaacta gaggaaaaag tttagtctgt aaacaaatca
     4321 ttagatggca tcagaatttg aaccaaagta aaagatgctg gaccttggca cttatcagag
     4381 aagtatagaa gagccaggta ggggatttta tttacaacat gttcaattct gaggaagagg
     4441 agtatgggca gggcagagga aaaaggaaaa atgggaaacc cccatggact tagggccccc
     4501 acaaagagaa accatgtgcc ttctccccac ttcccttctg gcttgggcaa atgaggctcc
     4561 ctttaggggt agaggtactc tacaggggct atgttccctt taggggtaga ggtagtctac
     4621 aggggccagc tgggcagaga tgaaatcttg caaaggaacc cttcttacac tcgaaaagca
     4681 agaatagcaa agggactttg ggaaggacat aaaacaagaa aaggaagctc ctcaccaaca
     4741 gctcccagat ggagggagtt tgtgtgtcta gcattttcac caaagtgctg ctcatcctga
     4801 tgcacagatg cagattggag ctgctgcctg tgccctcacc atgggtatgt acccaccaca
     4861 ggcattccca ggtgatgcgg gggcagagga ttccctcttt ccactcagga taacaacccc
     4921 tcgatggggt tttcaacaag tatagaaagc tcctggactc agccaagacc ctcacctaca
     4981 gtcccagtcc tcccaccttc ttcaggtctc tagaagacag aactgatggg tttacaacat
     5041 cctattatcc agcactagtc ctaggttgtg gatgtaggga aaggccaggt aaacaaggaa
     5101 gggagaacag gtgaatgacc ccaattgttt gaaaccaaaa gagcagaatt gcccctaatt
     5161 gatttaagta aacagcaagt aacataggtc tgttaaatag aagaggatgt gagcaccaga
     5221 tgcacgtgat aaagaccatg ctctggaaga ttcattccaa ggagtagaag tggtatttac
     5281 tcagggcatt taaggagagc agggactctg aaatgaggtg agagaaaaga taagacatgc
     5341 aggaacagct ggcaacacca agaaagaatt taaggagagg gatctctctg ttagagaact
     5401 taacattacc ctaggaacag caagagcatc atcagcccca ggaaaatcta cctctgatat
     5461 ggagaccagg cttaagaaaa tcccctagaa cccagagaaa aagtgcaaaa caaggaaaat
     5521 ggccaaagag aatatcatag atacagagat cagacaatga gaatccagag tcttgttaag
     5581 tgatagaagg aaaatactaa cagaacacat gtaacaggaa caacatttta gaggaaacag
     5641 gacaaaaact tccctaaact caagatacta caccagaagt gggcagtact cactatgttc
     5701 aggggaacaa aaagataaaa actaaaaagc atcagactgt tttttgtgtg aaggaaattt
     5761 gtaaggtagg agaattaggt cacttactac agcacaaatt gcatgtctat ctaaattgac
     5821 gtttaagtgc aaaagcatgg atattactca tgcagtttta ctggaaaacc atacagatgt
     5881 ttttcaggaa tgtacagaat gaatcaaagg aaataactga tcgacaggaa aactgtagga
     5941 aatttgtggg ctggctgtga ggcagtggct cctattatgt acaattttag tgctaagtac
     6001 tgtgttaatg atggctatca aacaatatgt taacatctga aaggaaatat gtatattgag
     6061 cataataaat attttataaa taacaataaa tcatttgatt ttatgcta
//
