LOCUS       NM_001135012            3340 bp    mRNA    linear   ROD 13-FEB-2025
DEFINITION  Rattus norvegicus ubiquitin specific peptidase 4 (Usp4), mRNA.
ACCESSION   NM_001135012
VERSION     NM_001135012.3
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (bases 1 to 3340)
  AUTHORS   Jiang,X., Yu,M., Ou,Y., Cao,Y., Yao,Y., Cai,P. and Zhang,F.
  TITLE     Downregulation of USP4 Promotes Activation of Microglia and
            Subsequent Neuronal Inflammation in Rat Spinal Cord After Injury
  JOURNAL   Neurochem Res 42 (11), 3245-3253 (2017)
   PUBMED   28755289
  REMARK    GeneRIF: USP4 was expressed in microglia, but its expression
            decreased after spinal cord injury.
REFERENCE   2  (bases 1 to 3340)
  AUTHORS   Liu,C., Liu,C., Liu,H., Gong,L., Tao,T., Shen,Y., Zhu,S. and
            Shen,A.
  TITLE     Increased Expression of Ubiquitin-Specific Protease 4 Participates
            in Neuronal Apoptosis After Intracerebral Hemorrhage in Adult Rats
  JOURNAL   Cell Mol Neurobiol 37 (3), 427-435 (2017)
   PUBMED   27114249
  REMARK    GeneRIF: USP4 may be involved in neuronal apoptosis after
            intracerebral hemorrhage.
REFERENCE   3  (bases 1 to 3340)
  AUTHORS   Elliott,P.R., Liu,H., Pastok,M.W., Grossmann,G.J., Rigden,D.J.,
            Clague,M.J., Urbe,S. and Barsukov,I.L.
  TITLE     Structural variability of the ubiquitin specific protease DUSP-UBL
            double domains
  JOURNAL   FEBS Lett 585 (21), 3385-3390 (2011)
   PUBMED   22001210
REFERENCE   4  (bases 1 to 3340)
  AUTHORS   Song,E.J., Werner,S.L., Neubauer,J., Stegmeier,F., Aspden,J.,
            Rio,D., Harper,J.W., Elledge,S.J., Kirschner,M.W. and Rape,M.
  TITLE     The Prp19 complex and the Usp4Sart3 deubiquitinating enzyme control
            reversible ubiquitination at the spliceosome
  JOURNAL   Genes Dev 24 (13), 1434-1447 (2010)
   PUBMED   20595234
REFERENCE   5  (bases 1 to 3340)
  AUTHORS   Milojevic,T., Reiterer,V., Stefan,E., Korkhov,V.M., Dorostkar,M.M.,
            Ducza,E., Ogris,E., Boehm,S., Freissmuth,M. and Nanoff,C.
  TITLE     The ubiquitin-specific protease Usp4 regulates the cell surface
            level of the A2A receptor
  JOURNAL   Mol Pharmacol 69 (4), 1083-1094 (2006)
   PUBMED   16339847
REFERENCE   6  (bases 1 to 3340)
  AUTHORS   Wada,K. and Kamitani,T.
  TITLE     UnpEL/Usp4 is ubiquitinated by Ro52 and deubiquitinated by itself
  JOURNAL   Biochem Biophys Res Commun 342 (1), 253-258 (2006)
   PUBMED   16472766
REFERENCE   7  (bases 1 to 3340)
  AUTHORS   Wada,K., Tanji,K. and Kamitani,T.
  TITLE     Oncogenic protein UnpEL/Usp4 deubiquitinates Ro52 by its
            isopeptidase activity
  JOURNAL   Biochem Biophys Res Commun 339 (3), 731-736 (2006)
   PUBMED   16316627
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000008.1.
            
            On Mar 22, 2021 this sequence version replaced NM_001135012.2.
            
            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 :: BC166460.1, SRR26643297.29976.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA5760383, SAMEA5760386
                                           [ECO:0000348]
            ##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
            1-125               JAXUCZ010000008.1  117914655-117914779
            126-253             JAXUCZ010000008.1  117917835-117917962
            254-384             JAXUCZ010000008.1  117924925-117925055
            385-511             JAXUCZ010000008.1  117927247-117927373
            512-657             JAXUCZ010000008.1  117928318-117928463
            658-719             JAXUCZ010000008.1  117928594-117928655
            720-860             JAXUCZ010000008.1  117931389-117931529
            861-978             JAXUCZ010000008.1  117932366-117932483
            979-1152            JAXUCZ010000008.1  117933482-117933655
            1153-1311           JAXUCZ010000008.1  117936082-117936240
            1312-1536           JAXUCZ010000008.1  117937841-117938065
            1537-1620           JAXUCZ010000008.1  117938895-117938978
            1621-1715           JAXUCZ010000008.1  117939499-117939593
            1716-1907           JAXUCZ010000008.1  117944325-117944516
            1908-1996           JAXUCZ010000008.1  117945181-117945269
            1997-2218           JAXUCZ010000008.1  117947004-117947225
            2219-2289           JAXUCZ010000008.1  117950477-117950547
            2290-2408           JAXUCZ010000008.1  117950776-117950894
            2409-2558           JAXUCZ010000008.1  117951231-117951380
            2559-2662           JAXUCZ010000008.1  117953995-117954098
            2663-2751           JAXUCZ010000008.1  117956695-117956783
            2752-3340           JAXUCZ010000008.1  117957346-117957934
FEATURES             Location/Qualifiers
     source          1..3340
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="8"
                     /map="8q32"
     gene            1..3340
                     /gene="Usp4"
                     /note="ubiquitin specific peptidase 4"
                     /db_xref="GeneID:290864"
                     /db_xref="RGD:1587387"
     exon            1..125
                     /gene="Usp4"
                     /inference="alignment:Splign:2.1.0"
     CDS             25..2910
                     /gene="Usp4"
                     /EC_number="3.4.19.12"
                     /note="ubiquitin specific protease 4 (proto-oncogene);
                     ubiquitin thioesterase 4; deubiquitinating enzyme 4;
                     ubiquitin-specific-processing protease 4; ubiquitin
                     specific peptidase 4 (proto-oncogene)"
                     /codon_start=1
                     /product="ubiquitin carboxyl-terminal hydrolase 4"
                     /protein_id="NP_001128484.1"
                     /db_xref="GeneID:290864"
                     /db_xref="RGD:1587387"
                     /translation="MAEGRGTHERPDVETQKTELGALMGTTLQRGAQWYLIDSRWFKQ
                     WKKYVGFDSWDMYNVGEHNLFPGPIDNSGLFSDPESQTLKEHLIDELDYVLVPTEAWN
                     KLLNWYGCVEGQQPIVRKVVEHGLFVKHCKVEVYLLELKLCENSDPTNVLSCHFSKAD
                     TIATIEKEMRKLFNIPAERETRLWNKYMSNTYEQLSKLDNTIQDAGLYQGQVLVIEPQ
                     NEDGTWPRQTLQSKSSTAPSRNFTTSSKPSASPYSSMSASLIANGDSTNSSGMHNSGV
                     SRGGAGFSASYNCQEPPSPHIQPGLCGLGNLGNTCFMNSALQCLSNTGPLTEYFLKDE
                     YEAEINRDNPLGMKGEIAEAYAELIKQMWSGRDTHVAPRMFKTQVGRFAPQFSGYQQQ
                     DSQELLAFILDGLHEDLNRVKKKPYLEPKDANGRPDAVVAKEAWENHRLRNDSVIVDT
                     FHGLFKSTLVCPECAKVSVTFDPFCYLTLPLPLKKDRIMEVFLVPADPHCRPIQYRVT
                     VPLMGAISDLCEALSKLSGIAAENMVVTDVYNHRFHKIFQMDEGLSHITPRDDIFVYE
                     ICTTPMDGSEYITLPVYFREKKSRPSSTSSGAVLYGQPLLVSVPKHRLTLESLYQAVC
                     ERISRYIKQPLPEEFLSSPLEPGACNGSRGSYEGDEEEMDHQEEGKEQLSEVEESGED
                     SQGGDPTETTQKAKGPPRHKRLFTFSLVNSCGTADINSLATDGKLLKLNSRSTLAIDW
                     DSETRSLYFDEQESEACEKHTSMSQPQKKKKAAIALRECIELFTTMETLGEHDPWYCP
                     TCKKHQQATKKFDLWSLPKILVVHLKRFSYNRYWRDKLDTVVEFPVRALNMSEFVCDR
                     AARPYVYDLIAVSNHYGAMGVGHYTAYAKNRLNGKWYYFDDSSVSLASEDQIVTKAAY
                     VLFYQRRDDECPSTSSPVSFPGSDGGAKLSSSQQDLGEEEAYTMDTN"
     exon            126..253
                     /gene="Usp4"
                     /inference="alignment:Splign:2.1.0"
     exon            254..384
                     /gene="Usp4"
                     /inference="alignment:Splign:2.1.0"
     exon            385..511
                     /gene="Usp4"
                     /inference="alignment:Splign:2.1.0"
     exon            512..657
                     /gene="Usp4"
                     /inference="alignment:Splign:2.1.0"
     exon            658..719
                     /gene="Usp4"
                     /inference="alignment:Splign:2.1.0"
     exon            720..860
                     /gene="Usp4"
                     /inference="alignment:Splign:2.1.0"
     exon            861..978
                     /gene="Usp4"
                     /inference="alignment:Splign:2.1.0"
     exon            979..1152
                     /gene="Usp4"
                     /inference="alignment:Splign:2.1.0"
     exon            1153..1311
                     /gene="Usp4"
                     /inference="alignment:Splign:2.1.0"
     exon            1312..1536
                     /gene="Usp4"
                     /inference="alignment:Splign:2.1.0"
     exon            1537..1620
                     /gene="Usp4"
                     /inference="alignment:Splign:2.1.0"
     exon            1621..1715
                     /gene="Usp4"
                     /inference="alignment:Splign:2.1.0"
     exon            1716..1907
                     /gene="Usp4"
                     /inference="alignment:Splign:2.1.0"
     exon            1908..1996
                     /gene="Usp4"
                     /inference="alignment:Splign:2.1.0"
     exon            1997..2218
                     /gene="Usp4"
                     /inference="alignment:Splign:2.1.0"
     exon            2219..2289
                     /gene="Usp4"
                     /inference="alignment:Splign:2.1.0"
     exon            2290..2408
                     /gene="Usp4"
                     /inference="alignment:Splign:2.1.0"
     exon            2409..2558
                     /gene="Usp4"
                     /inference="alignment:Splign:2.1.0"
     exon            2559..2662
                     /gene="Usp4"
                     /inference="alignment:Splign:2.1.0"
     exon            2663..2751
                     /gene="Usp4"
                     /inference="alignment:Splign:2.1.0"
     exon            2752..3340
                     /gene="Usp4"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 ggctgggccc gggcggcgga cgagatggcg gaaggccggg gcacccatga gcgaccggat
       61 gtggagaccc agaagacgga gctcggagcc ttgatgggga ccacgctcca gcgtggggct
      121 cagtggtatc tgatcgacag ccggtggttc aagcagtgga agaagtacgt cggctttgac
      181 agctgggaca tgtacaacgt gggggagcac aatctctttc ctggaccgat tgacaactct
      241 gggctcttct cagatcctga gagtcagacc ttgaaggaac acttaatcga tgagctggac
      301 tatgtgttgg ttccaactga agcctggaat aaattgctaa attggtatgg ctgtgtggaa
      361 ggccagcagc ctattgtcag aaaagttgtg gagcatggcc tgtttgtcaa gcactgcaaa
      421 gtggaagtgt atttgctgga gttgaagctc tgtgagaaca gtgaccccac caatgtgcta
      481 agttgccatt ttagcaaagc agataccatt gcaactattg agaaggagat gaggaagctc
      541 ttcaacatcc ctgcagagcg tgaaacacga ctttggaaca aatacatgag caacacctat
      601 gagcagttga gcaagctaga caacactatc caggatgctg ggctgtacca gggtcaggtg
      661 ctagtaattg agccccaaaa tgaagacggc acatggccca ggcagaccct gcaatcaaaa
      721 tcaagcactg cacctagcag aaattttact acctcttcaa aaccatccgc aagtccctat
      781 tcctcaatgt ctgcctctct cattgcaaat ggtgatagca ctaacagctc tgggatgcac
      841 aactccggtg tcagcagggg tggagctggc ttctctgcct cgtataattg ccaggagccc
      901 ccatcacctc atatccagcc tggcctctgt ggactcggaa acctgggaaa cacctgtttt
      961 atgaattctg ctttgcagtg cctgagcaac actggtccac tgactgagta ctttctcaaa
     1021 gatgagtatg aggccgagat caacagagac aaccctctgg ggatgaaagg ggagattgca
     1081 gaggcctatg cagagctcat caagcagatg tggtctggaa gggacaccca cgtagcacca
     1141 cggatgttca aaacgcaagt gggacgtttc gcccctcagt tttctggcta ccaacaacaa
     1201 gactctcaag agctgttagc ctttattcta gatggattgc atgaagacct gaaccgagta
     1261 aagaagaagc cttacctgga gccaaaggat gccaatgggc gaccagatgc ggtggtagca
     1321 aaggaagcct gggaaaatca caggctgagg aatgactctg tgattgtgga tactttccat
     1381 ggccttttca aatctacttt ggtttgccca gaatgtgcta aagtttctgt gacctttgac
     1441 ccattttgct atctaactct cccactgcct ttgaagaaag atcgaattat ggaggtcttc
     1501 ctggttcctg ctgaccctca ttgcagacct atccagtacc gtgtgactgt gccattgatg
     1561 ggggccattt ctgacctgtg tgaagcactc tccaagctgt ctggcattgc tgcagaaaat
     1621 atggtggtca ctgatgtgta taatcaccgc ttccacaaaa ttttccaaat ggatgaaggt
     1681 ttaagccaca tcacgcctcg agatgacatt tttgtgtatg agatctgcac cactcccatg
     1741 gatggctcag aatatatcac tctcccagtc tacttcagag aaaagaagtc caggccatcg
     1801 agtacttcct ctggggccgt gctctatgga cagccacttc ttgtttctgt ccctaagcac
     1861 agactaaccc tcgagtcctt ataccaggct gtttgtgaac gtatcagccg ctatataaag
     1921 cagcctttgc ctgaggagtt tctcagctct cccttagagc ctggggcctg caatggctct
     1981 aggggtagct atgaaggaga tgaagaagaa atggatcatc aagaggaagg gaaagaacag
     2041 ctttctgaag tggaagaaag tggtgaggac agtcagggag gggaccctac tgagaccacc
     2101 caaaaggcga aaggcccgcc ccgccacaag aggcttttca ccttcagcct cgtgaactcc
     2161 tgtggaactg ctgatatcaa ctcgctggcc actgacggaa aactcctcaa gctcaactct
     2221 cgatccacac tggccattga ctgggacagt gagacccgaa gcctttactt tgatgagcaa
     2281 gaatctgagg cctgtgagaa gcacacgagc atgtcccagc ctcagaagaa gaagaaggct
     2341 gcaatagccc tgcgggagtg catcgagctc tttactacca tggagaccct tggggagcat
     2401 gacccctggt actgtcccac ctgtaagaag caccaacagg caacaaaaaa gtttgatttg
     2461 tggtctttgc ccaagatcct ggtggttcat ctcaaacgtt tctcctataa cagatactgg
     2521 cgggataaac tggacacagt tgtggaattc ccagtaagag ctctgaacat gtccgagttt
     2581 gtgtgtgacc gggcagcaag gccttatgtc tatgacctga ttgctgtgtc caatcactat
     2641 ggcgctatgg gggtcggtca ctatactgca tatgcgaaga acagactgaa tgggaaatgg
     2701 tattactttg atgatagcag cgtgtccctg gcctctgagg atcagatagt gacgaaggcc
     2761 gcctacgtgt tgttttacca gcgtcgggat gatgagtgtc ccagcacctc ctcacctgtc
     2821 agcttcccgg gttctgatgg aggggcgaag ctcagcagct cacagcagga cttgggggaa
     2881 gaggaggctt acaccatgga caccaactga ctctgtgacc tgccacccca cagcaccagt
     2941 gtcctcccca gaataccttt ggcactctga agaccactcg tatcaatcta aaccagatga
     3001 agaaattacc ttcttttatg agaagaggaa ggaaaaacaa acaaacaaac aaaaaaaaaa
     3061 aaacaaccct gctttctctg aagggttcag aggctgaatt atttttttct tttaaacggg
     3121 tggtgagata aaaacctgtg gagctgaaat gtggggtgga tttggtgcac agtggcgcat
     3181 gtctcgcaga ctacaaagac tggagaggaa catcctgtga ggagtagtgc agccatgaag
     3241 acccacctgc agggctgctc tgaactcctg ggtttgggat tctggtgccc acactgctca
     3301 ccccagtagt ctggccacag taaaccaagc ctccagtaaa
//
