LOCUS       NM_006447               2924 bp    mRNA    linear   PRI 19-SEP-2024
DEFINITION  Homo sapiens ubiquitin specific peptidase 16 (USP16), transcript
            variant 1, mRNA.
ACCESSION   NM_006447
VERSION     NM_006447.3
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 2924)
  AUTHORS   Zhao,J., Hua,J., Zhan,Y., Chen,C., Liu,Y., Yang,L., Wang,H.,
            Wang,H. and Li,J.
  TITLE     O-GlcNAcylation stimulates the deubiquitination activity of USP16
            and regulates cell cycle progression
  JOURNAL   J Biol Chem 300 (4), 107150 (2024)
   PUBMED   38462164
  REMARK    GeneRIF: O-GlcNAcylation stimulates the deubiquitination activity
            of USP16 and regulates cell cycle progression.
REFERENCE   2  (bases 1 to 2924)
  AUTHORS   Liu,S., Li,H., Zhu,Y., Ma,X., Shao,Z., Yang,Z., Cai,C., Wu,Z.,
            Li,M., Gong,W. and Wu,X.
  TITLE     LncRNA MNX1-AS1 sustains inactivation of Hippo pathway through a
            positive feedback loop with USP16/IGF2BP3 axis in gallbladder
            cancer
  JOURNAL   Cancer Lett 547, 215862 (2022)
   PUBMED   35953000
  REMARK    GeneRIF: LncRNA MNX1-AS1 sustains inactivation of Hippo pathway
            through a positive feedback loop with USP16/IGF2BP3 axis in
            gallbladder cancer.
REFERENCE   3  (bases 1 to 2924)
  AUTHORS   Ge,J., Yu,W., Li,J., Ma,H., Wang,P., Zhou,Y., Wang,Y., Zhang,J. and
            Shi,G.
  TITLE     USP16 regulates castration-resistant prostate cancer cell
            proliferation by deubiquitinating and stablizing c-Myc
  JOURNAL   J Exp Clin Cancer Res 40 (1), 59 (2021)
   PUBMED   33546726
  REMARK    GeneRIF: USP16 regulates castration-resistant prostate cancer cell
            proliferation by deubiquitinating and stablizing c-Myc.
            Publication Status: Online-Only
REFERENCE   4  (bases 1 to 2924)
  AUTHORS   Haenig,C., Atias,N., Taylor,A.K., Mazza,A., Schaefer,M.H., Russ,J.,
            Riechers,S.P., Jain,S., Coughlin,M., Fontaine,J.F., Freibaum,B.D.,
            Brusendorf,L., Zenkner,M., Porras,P., Stroedicke,M., Schnoegl,S.,
            Arnsburg,K., Boeddrich,A., Pigazzini,L., Heutink,P., Taylor,J.P.,
            Kirstein,J., Andrade-Navarro,M.A., Sharan,R. and Wanker,E.E.
  TITLE     Interactome Mapping Provides a Network of Neurodegenerative Disease
            Proteins and Uncovers Widespread Protein Aggregation in Affected
            Brains
  JOURNAL   Cell Rep 32 (7), 108050 (2020)
   PUBMED   32814053
REFERENCE   5  (bases 1 to 2924)
  AUTHORS   Li,Y., Rao,Y., Zhu,H., Jiang,B. and Zhu,M.
  TITLE     USP16 Regulates the Stability and Function of LDL receptor by
            Deubiquitination
  JOURNAL   Int Heart J 61 (5), 1034-1040 (2020)
   PUBMED   32999190
  REMARK    GeneRIF: USP16 Regulates the Stability and Function of LDL receptor
            by Deubiquitination.
REFERENCE   6  (bases 1 to 2924)
  AUTHORS   Pai,M.T., Tzeng,S.R., Kovacs,J.J., Keaton,M.A., Li,S.S., Yao,T.P.
            and Zhou,P.
  TITLE     Solution structure of the Ubp-M BUZ domain, a highly specific
            protein module that recognizes the C-terminal tail of free
            ubiquitin
  JOURNAL   J Mol Biol 370 (2), 290-302 (2007)
   PUBMED   17512543
  REMARK    GeneRIF: Study reports the solution structure of the BUZ domain of
            Ubp-M, a ubiquitin-specific protease, and its interaction with
            ubiquitin; the Ubp-M BUZ domain features three zinc-binding sites
            consisting of 12 residues.
REFERENCE   7  (bases 1 to 2924)
  AUTHORS   Puente,X.S., Sanchez,L.M., Overall,C.M. and Lopez-Otin,C.
  TITLE     Human and mouse proteases: a comparative genomic approach
  JOURNAL   Nat Rev Genet 4 (7), 544-558 (2003)
   PUBMED   12838346
  REMARK    Review article
REFERENCE   8  (bases 1 to 2924)
  AUTHORS   Wistow,G., Bernstein,S.L., Wyatt,M.K., Ray,S., Behal,A.,
            Touchman,J.W., Bouffard,G., Smith,D. and Peterson,K.
  TITLE     Expressed sequence tag analysis of human retina for the NEIBank
            Project: retbindin, an abundant, novel retinal cDNA and alternative
            splicing of other retina-preferred gene transcripts
  JOURNAL   Mol Vis 8, 196-204 (2002)
   PUBMED   12107411
  REMARK    Publication Status: Online-Only
REFERENCE   9  (bases 1 to 2924)
  AUTHORS   Cai,S.Y., Babbitt,R.W. and Marchesi,V.T.
  TITLE     A mutant deubiquitinating enzyme (Ubp-M) associates with mitotic
            chromosomes and blocks cell division
  JOURNAL   Proc Natl Acad Sci U S A 96 (6), 2828-2833 (1999)
   PUBMED   10077596
REFERENCE   10 (bases 1 to 2924)
  AUTHORS   D'Andrea,A. and Pellman,D.
  TITLE     Deubiquitinating enzymes: a new class of biological regulators
  JOURNAL   Crit Rev Biochem Mol Biol 33 (5), 337-352 (1998)
   PUBMED   9827704
  REMARK    Review article
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AK025104.1, AF126736.1 and
            AF113219.1.
            
            On Nov 23, 2018 this sequence version replaced NM_006447.2.
            
            Summary: This gene encodes a deubiquitinating enzyme that is
            phosphorylated at the onset of mitosis and then dephosphorylated at
            the metaphase/anaphase transition. It can deubiquitinate H2A, one
            of two major ubiquitinated proteins of chromatin, in vitro and a
            mutant form of the protein was shown to block cell division.
            Alternate transcriptional splice variants, encoding different
            isoforms, have been characterized. [provided by RefSeq, Jul 2008].
            
            Transcript Variant: This variant (1) represents the longest
            transcript and encodes the longest isoform (a).
            
            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 :: SRR3476690.610253.1,
                                           SRR1660807.198888.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000399976.7/ ENSP00000382858.2
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-23                AK025104.1         18-40
            24-2914             AF126736.1         1-2891
            2915-2924           AF113219.1         2351-2360
FEATURES             Location/Qualifiers
     source          1..2924
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="21"
                     /map="21q21.3"
     gene            1..2924
                     /gene="USP16"
                     /gene_synonym="UBP-M; UBPM"
                     /note="ubiquitin specific peptidase 16"
                     /db_xref="GeneID:10600"
                     /db_xref="HGNC:HGNC:12614"
                     /db_xref="MIM:604735"
     exon            1..110
                     /gene="USP16"
                     /gene_synonym="UBP-M; UBPM"
                     /inference="alignment:Splign:2.1.0"
     exon            111..212
                     /gene="USP16"
                     /gene_synonym="UBP-M; UBPM"
                     /inference="alignment:Splign:2.1.0"
     CDS             152..2623
                     /gene="USP16"
                     /gene_synonym="UBP-M; UBPM"
                     /EC_number="3.4.19.12"
                     /note="isoform a is encoded by transcript variant 1;
                     ubiquitin specific protease 16; ubiquitin
                     carboxyl-terminal hydrolase 16; ubiquitin thiolesterase
                     16; deubiquitinating enzyme 16; ubiquitin-specific
                     processing protease 16; ubiquitin thioesterase 16;
                     ubiquitin-processing protease UBP-M"
                     /codon_start=1
                     /product="ubiquitin carboxyl-terminal hydrolase 16 isoform
                     a"
                     /protein_id="NP_006438.1"
                     /db_xref="CCDS:CCDS13583.1"
                     /db_xref="GeneID:10600"
                     /db_xref="HGNC:HGNC:12614"
                     /db_xref="MIM:604735"
                     /translation="MGKKRTKGKTVPIDDSSETLEPVCRHIRKGLEQGNLKKALVNVE
                     WNICQDCKTDNKVKDKAEEETEEKPSVWLCLKCGHQGCGRNSQEQHALKHYLTPRSEP
                     HCLVLSLDNWSVWCYVCDNEVQYCSSNQLGQVVDYVRKQASITTPKPAEKDNGNIELE
                     NKKLEKESKNEQEREKKENMAKENPPMNSPCQITVKGLSNLGNTCFFNAVMQNLSQTP
                     VLRELLKEVKMSGTIVKIEPPDLALTEPLEINLEPPGPLTLAMSQFLNEMQETKKGVV
                     TPKELFSQVCKKAVRFKGYQQQDSQELLRYLLDGMRAEEHQRVSKGILKAFGNSTEKL
                     DEELKNKVKDYEKKKSMPSFVDRIFGGELTSMIMCDQCRTVSLVHESFLDLSLPVLDD
                     QSGKKSVNDKNLKKTVEDEDQDSEEEKDNDSYIKERSDIPSGTSKHLQKKAKKQAKKQ
                     AKNQRRQQKIQGKVLHLNDICTIDHPEDSEYEAEMSLQGEVNIKSNHISQEGVMHKEY
                     CVNQKDLNGQAKMIESVTDNQKSTEEVDMKNINMDNDLEVLTSSPTRNLNGAYLTEGS
                     NGEVDISNGFKNLNLNAALHPDEINIEILNDSHTPGTKVYEVVNEDPETAFCTLANRE
                     VFNTDECSIQHCLYQFTRNEKLRDANKLLCEVCTRRQCNGPKANIKGERKHVYTNAKK
                     QMLISLAPPVLTLHLKRFQQAGFNLRKVNKHIKFPEILDLAPFCTLKCKNVAEENTRV
                     LYSLYGVVEHSGTMRSGHYTAYAKARTANSHLSNLVLHGDIPQDFEMESKGQWFHISD
                     THVQAVPTTKVLNSQAYLLFYERIL"
     exon            213..391
                     /gene="USP16"
                     /gene_synonym="UBP-M; UBPM"
                     /inference="alignment:Splign:2.1.0"
     exon            392..495
                     /gene="USP16"
                     /gene_synonym="UBP-M; UBPM"
                     /inference="alignment:Splign:2.1.0"
     exon            496..599
                     /gene="USP16"
                     /gene_synonym="UBP-M; UBPM"
                     /inference="alignment:Splign:2.1.0"
     exon            600..787
                     /gene="USP16"
                     /gene_synonym="UBP-M; UBPM"
                     /inference="alignment:Splign:2.1.0"
     exon            788..883
                     /gene="USP16"
                     /gene_synonym="UBP-M; UBPM"
                     /inference="alignment:Splign:2.1.0"
     exon            884..1014
                     /gene="USP16"
                     /gene_synonym="UBP-M; UBPM"
                     /inference="alignment:Splign:2.1.0"
     exon            1015..1102
                     /gene="USP16"
                     /gene_synonym="UBP-M; UBPM"
                     /inference="alignment:Splign:2.1.0"
     exon            1103..1181
                     /gene="USP16"
                     /gene_synonym="UBP-M; UBPM"
                     /inference="alignment:Splign:2.1.0"
     exon            1182..1273
                     /gene="USP16"
                     /gene_synonym="UBP-M; UBPM"
                     /inference="alignment:Splign:2.1.0"
     exon            1274..1330
                     /gene="USP16"
                     /gene_synonym="UBP-M; UBPM"
                     /inference="alignment:Splign:2.1.0"
     exon            1331..1507
                     /gene="USP16"
                     /gene_synonym="UBP-M; UBPM"
                     /inference="alignment:Splign:2.1.0"
     exon            1508..2162
                     /gene="USP16"
                     /gene_synonym="UBP-M; UBPM"
                     /inference="alignment:Splign:2.1.0"
     exon            2163..2257
                     /gene="USP16"
                     /gene_synonym="UBP-M; UBPM"
                     /inference="alignment:Splign:2.1.0"
     exon            2258..2344
                     /gene="USP16"
                     /gene_synonym="UBP-M; UBPM"
                     /inference="alignment:Splign:2.1.0"
     exon            2345..2501
                     /gene="USP16"
                     /gene_synonym="UBP-M; UBPM"
                     /inference="alignment:Splign:2.1.0"
     exon            2502..2924
                     /gene="USP16"
                     /gene_synonym="UBP-M; UBPM"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2903..2908
                     /regulatory_class="polyA_signal_sequence"
                     /gene="USP16"
                     /gene_synonym="UBP-M; UBPM"
                     /note="hexamer: AATAAA"
     polyA_site      2924
                     /gene="USP16"
                     /gene_synonym="UBP-M; UBPM"
                     /note="major polyA site"
ORIGIN      
        1 actctggctt cgactccgtc gctctcaatt cgtcaccagg aggaagacgg agctggctgc
       61 ccagcccaaa ggcccatgag gggatgcagt tatgggctct gtcgccgtgg attgttattt
      121 tgtgtcagta agtaatccat aaagtgccaa catgggaaag aaacggacaa agggaaaaac
      181 tgttccaatc gatgattcct ctgaaacttt agaacctgtg tgcagacaca ttagaaaagg
      241 attggaacaa ggtaatttga aaaaggcttt agtgaatgtg gaatggaata tctgccaaga
      301 ctgtaagact gacaataaag tgaaagataa agctgaagaa gaaacagaag aaaagccttc
      361 agtttggctg tgtcttaaat gtggccatca gggctgtggc agaaattctc aggagcagca
      421 tgccttgaag cactatctga cgccaagatc tgaacctcac tgtctggttc ttagtttgga
      481 caactggagt gtatggtgtt acgtatgtga taatgaggtc cagtattgta gttcaaacca
      541 gttgggtcaa gtggttgatt atgtcagaaa acaagccagc attacaactc caaagccagc
      601 agagaaagat aatggaaata ttgaacttga aaataaaaaa ttagaaaaag agagtaagaa
      661 tgaacaagag agagaaaaga aggaaaacat ggctaaagag aatcctccca tgaattctcc
      721 ttgccaaata accgtgaaag gactcagtaa tttgggaaac acatgtttct tcaatgcagt
      781 tatgcagaac ttgtcacaaa caccagtgct tagagaacta ctaaaagaag tgaaaatgtc
      841 tggaacaatt gtaaaaattg aaccacctga tttggcatta acagaaccat tagaaataaa
      901 ccttgagcct ccaggccctc ttactttagc catgagccag tttcttaatg agatgcaaga
      961 gaccaaaaag ggggttgtga caccgaaaga actcttttct caggtctgta aaaaagcagt
     1021 gcggtttaaa ggctatcagc agcaagacag ccaggagctg cttcgctact tattggatgg
     1081 gatgagagca gaagaacacc aaagagtgag taaaggaata cttaaagcat ttggtaattc
     1141 tactgaaaag ttggatgaag aactaaaaaa taaagttaaa gattatgaga agaaaaaatc
     1201 aatgccaagt tttgttgacc gcatctttgg tggtgaacta actagtatga tcatgtgtga
     1261 tcaatgcaga actgtctcct tggttcatga atctttcctt gatttgtccc tcccagtttt
     1321 agatgatcag agtggtaaga aaagtgtaaa tgataaaaat ctgaaaaaga cagtggagga
     1381 tgaagatcaa gatagtgagg aagaaaaaga taacgacagt tacataaaag agagaagtga
     1441 tattccttct ggaacaagta agcacttaca gaaaaaagca aagaaacaag ccaaaaagca
     1501 agccaagaac caacgaagac aacaaaaaat tcaaggaaaa gttcttcatt taaatgatat
     1561 ttgtactatt gaccatcctg aagacagtga atatgaagct gaaatgtcac ttcaaggaga
     1621 agtaaatatt aaatccaacc atatttcaca agagggtgtt atgcataaag aatattgtgt
     1681 caaccagaaa gatttgaatg gccaagcaaa aatgatcgaa agtgtaactg acaatcaaaa
     1741 atccacagag gaagtagata tgaaaaatat caacatggat aatgatctgg aggttttaac
     1801 atcttctccc actaggaatt taaatggtgc ctacctaacg gaagggagca atggagaagt
     1861 ggacatttcc aatggtttca aaaacctaaa tttgaatgct gctcttcatc ctgatgaaat
     1921 aaatatagag attctgaatg atagtcatac tcctggaaca aaggtgtatg aggttgtaaa
     1981 tgaagatcca gaaactgctt tctgtactct tgcaaacagg gaagttttca atactgatga
     2041 gtgttcaatc caacattgtt tatatcagtt cacccgtaat gagaaacttc gagatgcgaa
     2101 taaactgctt tgtgaagtat gcacacggag acagtgtaat ggaccaaagg caaatataaa
     2161 aggtgaaagg aagcatgttt acaccaatgc caaaaagcag atgctaattt ctcttgctcc
     2221 tcctgttctt actcttcatt taaagagatt tcagcaggct ggttttaacc tacgcaaagt
     2281 taacaaacac ataaagtttc cggaaatctt agatttggct cctttttgca cccttaaatg
     2341 taagaatgtt gcagaagaaa atacaagggt actctattcc ttatatggag ttgttgaaca
     2401 cagtggtact atgaggtcgg ggcattacac tgcctatgcc aaggcaagaa ccgcaaatag
     2461 tcatctctct aatcttgttc ttcacggtga tattccacaa gattttgaaa tggaatcaaa
     2521 agggcagtgg tttcacatca gcgacacaca tgtgcaagct gtgcctacaa ctaaagtact
     2581 aaactcacaa gcgtacctcc tattttatga gagaatactg taataatatc aaaagcactt
     2641 tttctggaaa cacatttatg gcttttataa tggctgaaat aacgataaaa aaagactaat
     2701 taaaatcatg ttcacttaac attaaataca tgccagaaga aatcatgttt atttaaatat
     2761 tgaagggaaa aatacctaaa aatgtacaaa ggttttatat tgtcatagtg gtttttattc
     2821 ctgctttgtt tctggaaagg aaatcctgaa ttacttaagt actttgtgtt taatatatct
     2881 gggtgatgga tcacaacaca tcaataaact gacttaccct aaaa
//
