LOCUS       NM_001346261            4459 bp    mRNA    linear   PRI 12-DEC-2024
DEFINITION  Homo sapiens ubiquitin specific peptidase 28 (USP28), transcript
            variant 11, mRNA.
ACCESSION   NM_001346261 XM_017018062
VERSION     NM_001346261.2
KEYWORDS    RefSeq.
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 4459)
  AUTHORS   Jin,C., Einig,E., Xu,W., Kollampally,R.B., Schlosser,A., Flentje,M.
            and Popov,N.
  TITLE     The dimeric deubiquitinase USP28 integrates 53BP1 and MYC functions
            to limit DNA damage
  JOURNAL   Nucleic Acids Res 52 (6), 3011-3030 (2024)
   PUBMED   38227944
  REMARK    GeneRIF: The dimeric deubiquitinase USP28 integrates 53BP1 and MYC
            functions to limit DNA damage.
REFERENCE   2  (bases 1 to 4459)
  AUTHORS   Meitinger,F., Belal,H., Davis,R.L., Martinez,M.B., Shiau,A.K.,
            Oegema,K. and Desai,A.
  TITLE     Control of cell proliferation by memories of mitosis
  JOURNAL   Science 383 (6690), 1441-1448 (2024)
   PUBMED   38547292
  REMARK    GeneRIF: Control of cell proliferation by memories of mitosis.
REFERENCE   3  (bases 1 to 4459)
  AUTHORS   Karapurkar,J.K., Colaco,J.C., Suresh,B., Tyagi,A., Woo,S.H.,
            Jo,W.J., Ko,N., Singh,V., Hong,S.H., Oh,S.J., Kim,K.S. and
            Ramakrishna,S.
  TITLE     USP28 promotes tumorigenesis and cisplatin resistance by
            deubiquitinating MAST1 protein in cancer cells
  JOURNAL   Cell Mol Life Sci 81 (1), 145 (2024)
   PUBMED   38498222
  REMARK    GeneRIF: USP28 promotes tumorigenesis and cisplatin resistance by
            deubiquitinating MAST1 protein in cancer cells.
            Publication Status: Online-Only
REFERENCE   4  (bases 1 to 4459)
  AUTHORS   Zhou,W., Chen,J. and Wang,J.
  TITLE     Comprehensive prognostic and immunological analysis of Ubiquitin
            Specific Peptidase 28 in pan-cancers and identification of its role
            in hepatocellular carcinoma cell lines
  JOURNAL   Aging (Albany NY) 15 (13), 6545-6576 (2023)
   PUBMED   37450415
  REMARK    GeneRIF: Comprehensive prognostic and immunological analysis of
            Ubiquitin Specific Peptidase 28 in pan-cancers and identification
            of its role in hepatocellular carcinoma cell lines.
REFERENCE   5  (bases 1 to 4459)
  AUTHORS   Li,J., Peng,J., Wu,L., Shen,X., Zhen,X., Zhang,Y., Ma,H., Xu,Y.,
            Xiong,Q., Zhu,Q. and Zhang,P.
  TITLE     The deubiquitinase USP28 maintains the expression of the
            transcription factor MYCN and is essential in neuroblastoma cells
  JOURNAL   J Biol Chem 299 (7), 104856 (2023)
   PUBMED   37230388
  REMARK    GeneRIF: The deubiquitinase USP28 maintains the expression of the
            transcription factor MYCN and is essential in neuroblastoma cells.
REFERENCE   6  (bases 1 to 4459)
  AUTHORS   Popov,N., Herold,S., Llamazares,M., Schulein,C. and Eilers,M.
  TITLE     Fbw7 and Usp28 regulate myc protein stability in response to DNA
            damage
  JOURNAL   Cell Cycle 6 (19), 2327-2331 (2007)
   PUBMED   17873522
  REMARK    GeneRIF: Usp28 dissociates from Fbw7alpha in response to UV
            irradiation, providing a mechanism how Fbw7-mediated degradation of
            Myc is enhanced upon DNA damage.
REFERENCE   7  (bases 1 to 4459)
  AUTHORS   Popov,N., Wanzel,M., Madiredjo,M., Zhang,D., Beijersbergen,R.,
            Bernards,R., Moll,R., Elledge,S.J. and Eilers,M.
  TITLE     The ubiquitin-specific protease USP28 is required for MYC stability
  JOURNAL   Nat Cell Biol 9 (7), 765-774 (2007)
   PUBMED   17558397
  REMARK    GeneRIF: High expression levels of USP28 are found in colon and
            breast carcinomas, and stabilization of MYC by USP28 is essential
            for tumour-cell proliferation.
REFERENCE   8  (bases 1 to 4459)
  AUTHORS   Zhang,D., Zaugg,K., Mak,T.W. and Elledge,S.J.
  TITLE     A role for the deubiquitinating enzyme USP28 in control of the
            DNA-damage response
  JOURNAL   Cell 126 (3), 529-542 (2006)
   PUBMED   16901786
  REMARK    GeneRIF: Using a human cell line that faithfully recapitulated the
            Chk2-p53-PUMA pathway, we show that USP28 is required to stabilize
            Chk2 and 53BP1 in response to DNA damage.
REFERENCE   9  (bases 1 to 4459)
  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   10 (bases 1 to 4459)
  AUTHORS   Valero,R., Bayes,M., Francisca Sanchez-Font,M., Gonzalez-Angulo,O.,
            Gonzalez-Duarte,R. and Marfany,G.
  TITLE     Characterization of alternatively spliced products and
            tissue-specific isoforms of USP28 and USP25
  JOURNAL   Genome Biol 2 (10), RESEARCH0043 (2001)
   PUBMED   11597335
  REMARK    GeneRIF: molecular cloning of USP28 & characterization of
            alternatively spliced products and tissue-specific isoforms
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AP001874.4, AP003170.4 and
            KF459544.1.
            
            On Jun 2, 2019 this sequence version replaced NM_001346261.1.
            
            Summary: The protein encoded by this gene is a deubiquitinase
            involved in the DNA damage pathway and DNA damage-induced
            apoptosis. Overexpression of this gene is seen in several cancers.
            [provided by RefSeq, Oct 2016].
            
            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.
            
            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 :: SRR18074967.2667726.1,
                                           SRR11853567.6174.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-128               AP001874.4         7291-7418           c
            129-234             AP003170.4         97950-98055         c
            235-394             AP003170.4         96885-97044         c
            395-481             AP003170.4         90536-90622         c
            482-619             AP003170.4         89707-89844         c
            620-693             AP003170.4         88207-88280         c
            694-770             AP003170.4         87154-87230         c
            771-919             AP003170.4         85484-85632         c
            920-1047            AP003170.4         83520-83647         c
            1048-1143           AP003170.4         79892-79987         c
            1144-1323           AP003170.4         73945-74124         c
            1324-1532           AP003170.4         71461-71669         c
            1533-1603           AP003170.4         70172-70242         c
            1604-1832           AP003170.4         68563-68791         c
            1833-2024           AP003170.4         65350-65541         c
            2025-2164           AP003170.4         64585-64724         c
            2165-2260           AP003170.4         62776-62871         c
            2261-2439           AP003170.4         61155-61333         c
            2440-2518           AP003170.4         60960-61038         c
            2519-2598           AP003170.4         60085-60164         c
            2599-2722           AP003170.4         59445-59568         c
            2723-2918           AP003170.4         57770-57965         c
            2919-3202           KF459544.1         112-395
            3203-4459           AP003170.4         54162-55418         c
FEATURES             Location/Qualifiers
     source          1..4459
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="11"
                     /map="11q23.2"
     gene            1..4459
                     /gene="USP28"
                     /note="ubiquitin specific peptidase 28"
                     /db_xref="GeneID:57646"
                     /db_xref="HGNC:HGNC:12625"
                     /db_xref="MIM:610748"
     exon            1..128
                     /gene="USP28"
                     /inference="alignment:Splign:2.1.0"
     exon            129..234
                     /gene="USP28"
                     /inference="alignment:Splign:2.1.0"
     exon            235..394
                     /gene="USP28"
                     /inference="alignment:Splign:2.1.0"
     CDS             236..3094
                     /gene="USP28"
                     /EC_number="3.4.19.12"
                     /note="isoform k is encoded by transcript variant 11;
                     ubiquitin thioesterase 28; deubiquitinating enzyme 28;
                     ubiquitin-specific-processing protease 28; ubiquitin
                     thiolesterase 28"
                     /codon_start=1
                     /product="ubiquitin carboxyl-terminal hydrolase 28 isoform
                     k"
                     /protein_id="NP_001333190.1"
                     /db_xref="GeneID:57646"
                     /db_xref="HGNC:HGNC:12625"
                     /db_xref="MIM:610748"
                     /translation="MHEATSAETKRSKRKRCEVWGENPNPNDWRRVDGWPVGLKNVGN
                     TCWFSAVIQSLFQLPEFRRLVLSYSLPQNVLENCRSHTEKRNIMFMQELQYLFALMMG
                     SNRKFVDPSAALDLLKGAFRSSEEQQQDVSEFTHKLLDWLEDAFQLAVNVNSPRNKSE
                     NPMVQLFYGTFLTEGVREGKPFCNNETFGQYPLQVNGYRNLDECLEGAMVEGDVELLP
                     SDHSVKYGQERWFTKLPPVLTFELSRFEFNQSLGQPEKIHNKLEFPQIIYMDRYMYRS
                     KELIRNKRECIRKLKEEIKILQQKLERYVKYGSGPARFPLPDMLKYVIEFASTKPASE
                     SCPPESDTHMTLPLSSVHCSVSDQTSKESTSTESSSQDVESTFSSPEDSLPKSKPLTS
                     SRSSMEMPSQPAPRTVTDEEINFVKTCLQRWRSEIEQDIQDLKTCIASTTQTIEQMYC
                     DPLLRQVPYRLHAVLVHEGQANAGHYWAYIYNQPRQSWLKYNDISVTESSWEEVERDS
                     YGGLRNVSAYCLMYINDKLPYFNAEAAPTESDQMSEVEALSVELKHYIQEDNWRFEQE
                     VEEWEEEQSCKIPQMESSTNSSSQDYSTSQEPSVASSHGVRCLSSEHAVIVKEQTAQA
                     IANTARAYEKSGVEAALSEVMLSPAMQGVILAIAKARQTFDRDGSEAGLIKAFHEEYS
                     RLYQLAKETPTSHSDPRLQHVLVYFFQNEAPKRVVERTLLEQFADKNLSYDERSISIM
                     KVAQAKLKEIGPDDMNMEEYKKWHEDYSLFRKVSVYLLTGLELYQKGKYQEALSYLVY
                     AYQSNAALLMKGPRRGVKESVIALYRRKCLLELNAKAASLFETNDDHSVTEGINVMNE
                     LIIPCIHLIINNDISKDDLDAIEVMRNHWCSYLGQDIAENLQLCLGEFLPRLLDPSAE
                     IIVLKEPPTIRPNSPYDLCSRFAAVMESIQGVSTVTVK"
     exon            395..481
                     /gene="USP28"
                     /inference="alignment:Splign:2.1.0"
     exon            482..619
                     /gene="USP28"
                     /inference="alignment:Splign:2.1.0"
     exon            620..693
                     /gene="USP28"
                     /inference="alignment:Splign:2.1.0"
     exon            694..770
                     /gene="USP28"
                     /inference="alignment:Splign:2.1.0"
     exon            771..919
                     /gene="USP28"
                     /inference="alignment:Splign:2.1.0"
     exon            920..1047
                     /gene="USP28"
                     /inference="alignment:Splign:2.1.0"
     exon            1048..1143
                     /gene="USP28"
                     /inference="alignment:Splign:2.1.0"
     exon            1144..1323
                     /gene="USP28"
                     /inference="alignment:Splign:2.1.0"
     exon            1324..1532
                     /gene="USP28"
                     /inference="alignment:Splign:2.1.0"
     exon            1533..1603
                     /gene="USP28"
                     /inference="alignment:Splign:2.1.0"
     exon            1604..1832
                     /gene="USP28"
                     /inference="alignment:Splign:2.1.0"
     exon            1833..2024
                     /gene="USP28"
                     /inference="alignment:Splign:2.1.0"
     exon            2025..2164
                     /gene="USP28"
                     /inference="alignment:Splign:2.1.0"
     exon            2165..2260
                     /gene="USP28"
                     /inference="alignment:Splign:2.1.0"
     exon            2261..2439
                     /gene="USP28"
                     /inference="alignment:Splign:2.1.0"
     exon            2440..2518
                     /gene="USP28"
                     /inference="alignment:Splign:2.1.0"
     exon            2519..2598
                     /gene="USP28"
                     /inference="alignment:Splign:2.1.0"
     exon            2599..2722
                     /gene="USP28"
                     /inference="alignment:Splign:2.1.0"
     exon            2723..2918
                     /gene="USP28"
                     /inference="alignment:Splign:2.1.0"
     exon            2919..4459
                     /gene="USP28"
                     /inference="alignment:Splign:2.1.0"
     regulatory      4441..4446
                     /regulatory_class="polyA_signal_sequence"
                     /gene="USP28"
                     /note="hexamer: AATAAA"
     polyA_site      4459
                     /gene="USP28"
                     /note="major polyA site"
ORIGIN      
        1 ctagtcctga gaggctgggc cggcggcggc tgcggcggga gaccggtgac ccgcggctgg
       61 gcgcctcggc catgactgcg gagctgcagc aggacgacgc ggccggcgcg gcagacggcc
      121 acggctcgaa gttatagacc ttactcatga taacaaagat gatcttcagg ctgccattgc
      181 tttgagtcta ctggagtctc ccaaaattca agctgatgga agagatctta acaggatgca
      241 tgaagcaacc tctgcagaaa ctaaacgctc aaagagaaaa cgctgtgaag tctggggaga
      301 aaaccccaat cccaatgact ggaggagagt tgatggttgg ccagttgggc tgaaaaatgt
      361 tggcaataca tgttggttta gtgctgttat tcagtctctc tttcaattgc ctgaatttcg
      421 aagacttgtt ctcagttata gtctgccaca aaatgtactt gaaaattgtc gaagtcatac
      481 agaaaagaga aatatcatgt ttatgcaaga gcttcagtat ttgtttgctc taatgatggg
      541 atcaaataga aaatttgtag acccgtctgc agccctggat ctattaaagg gagcattccg
      601 atcatctgag gaacagcagc aagatgtgag tgaattcaca cacaagctcc tggattggct
      661 agaggacgca ttccagctag ctgttaatgt taacagtccc aggaacaaat ctgaaaatcc
      721 aatggtgcag ctgttctatg gtactttcct gactgaaggg gttcgtgaag gaaaaccctt
      781 ttgtaacaat gagaccttcg gccagtatcc tcttcaggta aacggttatc gcaacttaga
      841 cgagtgtttg gaaggggcca tggtggaggg tgatgttgag cttcttccct ccgatcactc
      901 ggtgaagtat ggacaagagc gttggtttac aaagctacct ccagtgttga cctttgaact
      961 ctcaagattt gagtttaatc agtcccttgg gcagccagag aaaattcaca ataagctgga
     1021 atttcctcag attatttata tggacaggta catgtacagg agcaaggagc ttattcgaaa
     1081 taagagagag tgtattcgaa agttgaagga ggaaataaaa attctgcagc aaaaattgga
     1141 aaggtatgtg aaatatggct caggcccagc tcggttcccg ctcccggaca tgctgaaata
     1201 tgttattgaa tttgctagta caaaacctgc ctcagaaagc tgtccacctg aaagtgacac
     1261 acatatgaca ttaccacttt cttcagtgca ctgctcggtt tctgaccaga catccaagga
     1321 aagtacaagt acagaaagct cttctcagga tgttgaaagt accttttctt ctcctgaaga
     1381 ttctttaccc aagtctaaac cactgacatc ttctcggtct tccatggaaa tgccttcaca
     1441 gccagctcca cgaacagtca cagatgagga gataaatttt gttaagacct gtcttcagag
     1501 atggaggagt gagattgaac aagatataca agatttaaag acttgtattg caagtactac
     1561 tcagactatt gaacagatgt actgcgatcc tctccttcgt caggtgcctt atcgcttgca
     1621 tgcagttctt gttcatgaag gacaagcaaa tgctggacac tattgggcct atatctataa
     1681 tcaaccccga cagagctggc tcaagtacaa tgacatctct gttactgaat cttcctggga
     1741 agaagttgaa agagattcct atggaggcct gagaaatgtt agtgcttact gtctgatgta
     1801 cattaatgac aaactaccct acttcaatgc agaggcagcc ccaactgaat cagatcaaat
     1861 gtcagaagtg gaagccctat ctgtggaact caagcattac attcaggagg ataactggcg
     1921 gtttgagcag gaagtagagg agtgggaaga agagcagtct tgcaaaatcc ctcaaatgga
     1981 gtcctccacc aactcctcat cacaggacta ctctacatca caagagcctt cagtagcctc
     2041 ttctcatggg gttcgctgct tgtcgtctga gcatgctgtg attgtaaagg agcaaactgc
     2101 ccaggctatt gcaaacacag cccgtgccta tgagaagagc ggtgtagaag cggcactgag
     2161 tgaggtgatg ctgagccctg ccatgcaagg ggtcatcctg gccatagcta aagcccgtca
     2221 gacctttgac cgagatgggt ctgaagcagg gctgattaag gcattccatg aagaatactc
     2281 caggctctat cagcttgcca aagagacccc cacctctcac agtgatcctc gacttcagca
     2341 tgtccttgtc tactttttcc aaaatgaagc acccaaaagg gtagtagaac gaacccttct
     2401 ggaacagttt gcagataaaa atcttagcta tgatgaaaga tcaatcagca ttatgaaggt
     2461 ggctcaagcg aaactgaagg aaattggtcc agatgacatg aatatggaag agtacaagaa
     2521 gtggcatgaa gattatagtt tgttccgaaa agtgtctgtg tatctcctaa caggcctaga
     2581 actctatcaa aaaggaaagt accaagaggc actttcctac ctggtatatg cctaccagag
     2641 caatgctgcc ctgctgatga aggggccccg ccggggggtc aaagaatccg tgattgcttt
     2701 ataccgaaga aaatgccttc tggagctgaa tgccaaagca gcttctcttt ttgaaacaaa
     2761 tgatgatcac tccgtaactg agggcattaa tgtgatgaat gaactgatca tcccctgcat
     2821 tcaccttatc attaataatg acatttccaa ggatgatctg gatgccattg aggtcatgag
     2881 aaaccattgg tgctcttacc ttgggcaaga tattgcagaa aatctgcagc tgtgcctagg
     2941 ggagtttcta cccagacttc tagatccttc tgcagaaatc atcgtcttga aagagcctcc
     3001 aactattcga cccaattctc cctatgacct atgtagccga tttgcagctg tcatggagtc
     3061 aattcaggga gtttcaactg tgacagtgaa ataagctccc acatgttcaa ggcccattct
     3121 ggttcctggc tgcctgcctc ttgcacagaa gttcgttgtc atagtgctca ccttgggaaa
     3181 aggattaggt gggcacataa gattccgatc agaccccaac catgctgcat gtgtaaagaa
     3241 ggattgaaaa taaaattgca ctttttaggt acaaaatcat aaaagctgtt tcactagaaa
     3301 aggcagaaag cagtgtatta aggtgttgaa ttacgccaga agacctgaaa tgccttgtac
     3361 ctacaacaat gcttaggctt ttctaagcct cttgccactt ttaaaattat ccttcaggca
     3421 taaatatttt tgacagcaga atagaagaat gattcatgag aacctgaacc agatgaacag
     3481 ctactagtta ttttatcaaa tacagatgac atttaaaaat tcttaactac aagagattag
     3541 aaatataaac cttgcctggc tcttgccagg agataacaaa atgggttgct gatgaactgc
     3601 acccttttac atgtgggtag aatataagct cacatggcag tgagatgttg aaaagtcaaa
     3661 agagacctgt ctctctcctt tcttttctat ctttaaacca gaaaacctca tactcagtcc
     3721 tcagtgaaag aaagtaaagt attaaggact ttagacagaa gagcattgtg taacttgact
     3781 gaagatcatc cattaatagt tattaggcat ttaggtaaaa ttttctaata cctaaaaatt
     3841 gtcaaaaaca gtcaataggg ctactgctgg cccaaagacc atttaggtcc acctcctctt
     3901 ttttgctctt tttttttttc tgtgacagtt tcactgtgtc gcccaggctg gcgttcagtg
     3961 gtgcaatctc agctcactgc aaactctgtc tcctgggctc aagtgattct cgtgcctcag
     4021 cctcccgaat agctggaatt acgggcatgc accaccacac ctggctaatt tttgtatttt
     4081 taatagagat ggggtttcac catattggcc aggctgatct ctaactcctg gcctcaagtg
     4141 atctatctgc ctccctcagc ctcccaaagt ctgggattgc agacaagtca tcgtacccgg
     4201 ccttcttttt tgcccttaaa agtaagggat gtgggtttgt acaaaaaaaa aaaaaaaaaa
     4261 aaaaaaacca gcatacatat gcaaaactat atatatatgt atatgtagag aaaaatactt
     4321 cccattgatc atttttaaaa ggcttctgat tggatattgt gttttaacca aattttaaag
     4381 attaatggaa tcatgaaagg gaaaaaaatt gatacaacta tgcagatttt ataaatgtgc
     4441 aataaaagta tttgtttta
//
