LOCUS       NM_032349               1466 bp    mRNA    linear   PRI 22-SEP-2024
DEFINITION  Homo sapiens nudix hydrolase 16 like 1 (NUDT16L1), transcript
            variant 1, mRNA.
ACCESSION   NM_032349
VERSION     NM_032349.4
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 1466)
  AUTHORS   Cho,N.H., Cheveralls,K.C., Brunner,A.D., Kim,K., Michaelis,A.C.,
            Raghavan,P., Kobayashi,H., Savy,L., Li,J.Y., Canaj,H., Kim,J.Y.S.,
            Stewart,E.M., Gnann,C., McCarthy,F., Cabrera,J.P., Brunetti,R.M.,
            Chhun,B.B., Dingle,G., Hein,M.Y., Huang,B., Mehta,S.B.,
            Weissman,J.S., Gomez-Sjoberg,R., Itzhak,D.N., Royer,L.A., Mann,M.
            and Leonetti,M.D.
  TITLE     OpenCell: Endogenous tagging for the cartography of human cellular
            organization
  JOURNAL   Science 375 (6585), eabi6983 (2022)
   PUBMED   35271311
REFERENCE   2  (bases 1 to 1466)
  AUTHORS   Parnandi,N., Rendo,V., Cui,G., Botuyan,M.V., Remisova,M.,
            Nguyen,H., Drane,P., Beroukhim,R., Altmeyer,M., Mer,G. and
            Chowdhury,D.
  TITLE     TIRR inhibits the 53BP1-p53 complex to alter cell-fate programs
  JOURNAL   Mol Cell 81 (12), 2583-2595 (2021)
   PUBMED   33961797
  REMARK    GeneRIF: TIRR inhibits the 53BP1-p53 complex to alter cell-fate
            programs.
REFERENCE   3  (bases 1 to 1466)
  AUTHORS   Huttlin,E.L., Bruckner,R.J., Navarrete-Perea,J., Cannon,J.R.,
            Baltier,K., Gebreab,F., Gygi,M.P., Thornock,A., Zarraga,G., Tam,S.,
            Szpyt,J., Gassaway,B.M., Panov,A., Parzen,H., Fu,S., Golbazi,A.,
            Maenpaa,E., Stricker,K., Guha Thakurta,S., Zhang,T., Rad,R.,
            Pan,J., Nusinow,D.P., Paulo,J.A., Schweppe,D.K., Vaites,L.P.,
            Harper,J.W. and Gygi,S.P.
  TITLE     Dual proteome-scale networks reveal cell-specific remodeling of the
            human interactome
  JOURNAL   Cell 184 (11), 3022-3040 (2021)
   PUBMED   33961781
REFERENCE   4  (bases 1 to 1466)
  AUTHORS   Luck,K., Kim,D.K., Lambourne,L., Spirohn,K., Begg,B.E., Bian,W.,
            Brignall,R., Cafarelli,T., Campos-Laborie,F.J., Charloteaux,B.,
            Choi,D., Cote,A.G., Daley,M., Deimling,S., Desbuleux,A., Dricot,A.,
            Gebbia,M., Hardy,M.F., Kishore,N., Knapp,J.J., Kovacs,I.A.,
            Lemmens,I., Mee,M.W., Mellor,J.C., Pollis,C., Pons,C.,
            Richardson,A.D., Schlabach,S., Teeking,B., Yadav,A., Babor,M.,
            Balcha,D., Basha,O., Bowman-Colin,C., Chin,S.F., Choi,S.G.,
            Colabella,C., Coppin,G., D'Amata,C., De Ridder,D., De Rouck,S.,
            Duran-Frigola,M., Ennajdaoui,H., Goebels,F., Goehring,L., Gopal,A.,
            Haddad,G., Hatchi,E., Helmy,M., Jacob,Y., Kassa,Y., Landini,S.,
            Li,R., van Lieshout,N., MacWilliams,A., Markey,D., Paulson,J.N.,
            Rangarajan,S., Rasla,J., Rayhan,A., Rolland,T., San-Miguel,A.,
            Shen,Y., Sheykhkarimli,D., Sheynkman,G.M., Simonovsky,E., Tasan,M.,
            Tejeda,A., Tropepe,V., Twizere,J.C., Wang,Y., Weatheritt,R.J.,
            Weile,J., Xia,Y., Yang,X., Yeger-Lotem,E., Zhong,Q., Aloy,P.,
            Bader,G.D., De Las Rivas,J., Gaudet,S., Hao,T., Rak,J.,
            Tavernier,J., Hill,D.E., Vidal,M., Roth,F.P. and Calderwood,M.A.
  TITLE     A reference map of the human binary protein interactome
  JOURNAL   Nature 580 (7803), 402-408 (2020)
   PUBMED   32296183
REFERENCE   5  (bases 1 to 1466)
  AUTHORS   Avolio,R., Jarvelin,A.I., Mohammed,S., Agliarulo,I., Condelli,V.,
            Zoppoli,P., Calice,G., Sarnataro,D., Bechara,E., Tartaglia,G.G.,
            Landriscina,M., Castello,A., Esposito,F. and Matassa,D.S.
  TITLE     Protein Syndesmos is a novel RNA-binding protein that regulates
            primary cilia formation
  JOURNAL   Nucleic Acids Res 46 (22), 12067-12086 (2018)
   PUBMED   30260431
  REMARK    GeneRIF: Identification of a small subset of mRNAs responsible for
            the biogenesis of primary cilium that have been linked to
            developmental and degenerative diseases, known as ciliopathies, and
            cancer. SDOS binds and regulates the translation of several of
            these mRNAs, controlling cilia development.
REFERENCE   6  (bases 1 to 1466)
  AUTHORS   Zhang,A., Peng,B., Huang,P., Chen,J. and Gong,Z.
  TITLE     The p53-binding protein 1-Tudor-interacting repair regulator
            complex participates in the DNA damage response
  JOURNAL   J Biol Chem 292 (16), 6461-6467 (2017)
   PUBMED   28213517
  REMARK    GeneRIF: TIRR is a novel 53BP1-interacting protein that
            participates in the DNA damage response
REFERENCE   7  (bases 1 to 1466)
  AUTHORS   Baltz,A.G., Munschauer,M., Schwanhausser,B., Vasile,A.,
            Murakawa,Y., Schueler,M., Youngs,N., Penfold-Brown,D., Drew,K.,
            Milek,M., Wyler,E., Bonneau,R., Selbach,M., Dieterich,C. and
            Landthaler,M.
  TITLE     The mRNA-bound proteome and its global occupancy profile on
            protein-coding transcripts
  JOURNAL   Mol Cell 46 (5), 674-690 (2012)
   PUBMED   22681889
REFERENCE   8  (bases 1 to 1466)
  AUTHORS   Song,M.G., Li,Y. and Kiledjian,M.
  TITLE     Multiple mRNA decapping enzymes in mammalian cells
  JOURNAL   Mol Cell 40 (3), 423-432 (2010)
   PUBMED   21070968
REFERENCE   9  (bases 1 to 1466)
  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   10 (bases 1 to 1466)
  AUTHORS   Andersen,J.S., Lam,Y.W., Leung,A.K., Ong,S.E., Lyon,C.E.,
            Lamond,A.I. and Mann,M.
  TITLE     Nucleolar proteome dynamics
  JOURNAL   Nature 433 (7021), 77-83 (2005)
   PUBMED   15635413
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC023830.9.
            
            On Jun 19, 2021 this sequence version replaced NM_032349.3.
            
            Transcript Variant: This variant (1) encodes the longest isoform
            (1).
            
            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 :: BC006223.2, SRR14038195.1721056.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            CDS uses downstream in-frame AUG :: upstream AUG and CDS extension
                                                is not conserved
            MANE Ensembl match               :: ENST00000304301.11/
                                                ENSP00000306670.5
            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
            1-318               AC023830.9         163270-163587
            319-579             AC023830.9         163686-163946
            580-1466            AC023830.9         164666-165552
FEATURES             Location/Qualifiers
     source          1..1466
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="16"
                     /map="16p13.3"
     gene            1..1466
                     /gene="NUDT16L1"
                     /gene_synonym="SDOS; TIRR"
                     /note="nudix hydrolase 16 like 1"
                     /db_xref="GeneID:84309"
                     /db_xref="HGNC:HGNC:28154"
                     /db_xref="MIM:617338"
     exon            1..318
                     /gene="NUDT16L1"
                     /gene_synonym="SDOS; TIRR"
                     /inference="alignment:Splign:2.1.0"
     CDS             166..801
                     /gene="NUDT16L1"
                     /gene_synonym="SDOS; TIRR"
                     /note="isoform 1 is encoded by transcript variant 1;
                     protein syndesmos; NUDT16-like protein 1; nudix
                     (nucleoside diphosphate linked moiety X)-type motif
                     16-like 1; tudor-interacting repair regulator protein"
                     /codon_start=1
                     /product="tudor-interacting repair regulator protein
                     isoform 1"
                     /protein_id="NP_115725.1"
                     /db_xref="CCDS:CCDS10519.1"
                     /db_xref="GeneID:84309"
                     /db_xref="HGNC:HGNC:28154"
                     /db_xref="MIM:617338"
                     /translation="MSTAAVPELKQISRVEAMRLGPGWSHSCHAMLYAANPGQLFGRI
                     PMRFSVLMQMRFDGLLGFPGGFVDRRFWSLEDGLNRVLGLGLGCLRLTEADYLSSHLT
                     EGPHRVVAHLYARQLTLEQLHAVEISAVHSRDHGLEVLGLVRVPLYTQKDRVGGFPNF
                     LSNAFVSTAKCQLLFALKVLNMMPEEKLVEALAAATEKQKKALEKLLPASS"
     exon            319..579
                     /gene="NUDT16L1"
                     /gene_synonym="SDOS; TIRR"
                     /inference="alignment:Splign:2.1.0"
     exon            580..1466
                     /gene="NUDT16L1"
                     /gene_synonym="SDOS; TIRR"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1445..1450
                     /regulatory_class="polyA_signal_sequence"
                     /gene="NUDT16L1"
                     /gene_synonym="SDOS; TIRR"
                     /note="hexamer: AATAAA"
     polyA_site      1466
                     /gene="NUDT16L1"
                     /gene_synonym="SDOS; TIRR"
                     /note="major polyA site"
ORIGIN      
        1 gacgacgcac cgcggcgctg cgaggggctc ggtcccgggg cgcgccggcg attggcgggg
       61 gaaccggacc cgggggcgcg gccgcccgcg gattggcgag gcacggcggg ggcgggctcg
      121 cgcatgctct taagtggcag cggcggggac ggggtcagtg ccaagatgtc gacggcggcg
      181 gttccggagc tgaagcagat cagccgggtg gaggcgatgc gcctagggcc gggctggagc
      241 cactcgtgcc acgccatgct gtacgccgcc aaccctgggc agctcttcgg ccgcatcccc
      301 atgcgcttct cggtgctgat gcagatgcgt ttcgacgggc tgctgggctt ccccgggggc
      361 ttcgtggacc ggcgcttctg gtcgctggag gacggcctga accgggtgct gggcctgggc
      421 ctgggctgcc tgcgcctcac cgaggccgac tacctgagct cgcacctgac cgagggccca
      481 caccgcgtcg tggcgcacct gtacgcgcgg cagctgacgc tggagcagct gcacgccgtg
      541 gagatcagcg cggtgcactc gcgcgaccac ggcctggagg tgctgggcct cgtgcgggtc
      601 ccgctgtaca cccagaagga ccgagtcgga ggcttcccca acttcctgag caacgccttc
      661 gtgagcacgg ctaagtgcca gctcctcttt gccctcaagg tgctcaacat gatgcccgag
      721 gagaagctgg ttgaggccct ggctgcagcc accgagaagc agaagaaggc cctggagaag
      781 ttgctcccgg cctcctcttg agggctgcct gagctggtgg caccctcccc tgggccggaa
      841 gactgggaat tcctgctaag tgtggcttct agagtgtttg tgtgtacccc gcttctgact
      901 gcctagggcg agtgggcatc ctgtcatcat ctccactgtc ccaagcagtc actaggtggc
      961 ggccgggcca gctggaaccc agcccatcct ctcaggcaga gcagggtggt ccgggcacac
     1021 tgggcctgcc tctccagcct caggatgctc ttgtttattc tgggctcaga ccctcctctt
     1081 gtacgtctca tcacagctgg tagagaccca ggagtgcctg attgtcccac aggggtggcg
     1141 cacagctctg ggaccactca gaagatggga tgtgtgggtg gaggatgcct tgtctcggtc
     1201 agctcattcc tgcctccttc ctgagccagt tcagggcctg ggggagagcc agcttggggt
     1261 aggaagttaa taatactgtt aatttgggtt gttgttggat ttactttgct agattttctc
     1321 tttcaccacg tgtgaactgt gggtgaggtt tcaaagtagc ttcaccccac gtggcttggt
     1381 tcccagggac agtcagggcc tcgggggccc agctatgtac aacgaagctg tcgaaggaga
     1441 agacaataaa gtcgctccgc agctgc
//
