LOCUS       NM_001413240            1943 bp    mRNA    linear   ROD 30-MAR-2024
DEFINITION  Rattus norvegicus tripartite motif-containing 50 (Trim50),
            transcript variant 2, mRNA.
ACCESSION   NM_001413240 XM_006249128
VERSION     NM_001413240.1
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 1943)
  AUTHORS   Nishi,M., Aoyama,F., Kisa,F., Zhu,H., Sun,M., Lin,P., Ohta,H.,
            Van,B., Yamamoto,S., Kakizawa,S., Sakai,H., Ma,J., Sawaguchi,A. and
            Takeshima,H.
  TITLE     TRIM50 protein regulates vesicular trafficking for acid secretion
            in gastric parietal cells
  JOURNAL   J Biol Chem 287 (40), 33523-33532 (2012)
   PUBMED   22872646
  REMARK    GeneRIF: TRIM50 protein regulates vesicular trafficking for acid
            secretion in gastric parietal cells
REFERENCE   2  (bases 1 to 1943)
  AUTHORS   Zurek,B., Schoultz,I., Neerincx,A., Napolitano,L.M., Birkner,K.,
            Bennek,E., Sellge,G., Lerm,M., Meroni,G., Soderholm,J.D. and
            Kufer,T.A.
  TITLE     TRIM27 negatively regulates NOD2 by ubiquitination and proteasomal
            degradation
  JOURNAL   PLoS One 7 (7), e41255 (2012)
   PUBMED   22829933
REFERENCE   3  (bases 1 to 1943)
  AUTHORS   Fusco,C., Micale,L., Egorov,M., Monti,M., D'Addetta,E.V.,
            Augello,B., Cozzolino,F., Calcagni,A., Fontana,A., Polishchuk,R.S.,
            Didelot,G., Reymond,A., Pucci,P. and Merla,G.
  TITLE     The E3-ubiquitin ligase TRIM50 interacts with HDAC6 and p62, and
            promotes the sequestration and clearance of ubiquitinated proteins
            into the aggresome
  JOURNAL   PLoS One 7 (7), e40440 (2012)
   PUBMED   22792322
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000012.1.
            
            On Oct 27, 2022 this sequence version replaced XM_006249128.4.
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC085684.1, SRR26643287.27946.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA5760389, SAMEA5760434
                                           [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
            1-152               JAXUCZ010000012.1  26954080-26954231   c
            153-559             JAXUCZ010000012.1  26952252-26952658   c
            560-655             JAXUCZ010000012.1  26947414-26947509   c
            656-886             JAXUCZ010000012.1  26941805-26942035   c
            887-909             JAXUCZ010000012.1  26941698-26941720   c
            910-1034            JAXUCZ010000012.1  26938668-26938792   c
            1035-1943           JAXUCZ010000012.1  26937349-26938257   c
FEATURES             Location/Qualifiers
     source          1..1943
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="12"
                     /map="12q12"
     gene            1..1943
                     /gene="Trim50"
                     /note="tripartite motif-containing 50"
                     /db_xref="GeneID:288596"
                     /db_xref="RGD:631346"
     exon            1..152
                     /gene="Trim50"
                     /inference="alignment:Splign:2.1.0"
     exon            153..559
                     /gene="Trim50"
                     /inference="alignment:Splign:2.1.0"
     CDS             161..1615
                     /gene="Trim50"
                     /EC_number="2.3.2.27"
                     /note="isoform 2 is encoded by transcript variant 2; E3
                     ubiquitin-protein ligase TRIM50; tripartite
                     motif-containing protein 50; tripartite motif protein 50;
                     RING-type E3 ubiquitin transferase TRIM50"
                     /codon_start=1
                     /product="E3 ubiquitin-protein ligase TRIM50 isoform 2"
                     /protein_id="NP_001400169.1"
                     /db_xref="GeneID:288596"
                     /db_xref="RGD:631346"
                     /translation="MAWQLTVPELQDQLQCPICLEVFKEPLMLQCGHSYCKNCLDSLS
                     EHLDSELRCPVCRQSVDCSSSPPNVSLARVIDALRLPGDTEPTVCVHHRNPLSLFCEK
                     DQEFICGLCGLLGSHQHHRVTPVSTVYSRMKEELAGRLSELKEQHRDVEEHIGKLVNN
                     RTRIINESDVFSWVIRREFQELHHLVDEEKARCLEGVESHTRGLVASLDMQLEQAQGT
                     QERLAQAERVLEQFGNESHHEFIRKFHSITSRGEVQQARPLEGVFSPISFKPALHQAD
                     IKLTVWKRLFRKVLPAPESLKLDPATAHPLLELSKGNTVVHCGLLAQRRASQPERFDY
                     STCVLASKGFSWGRHYWEVVVGSKSDWRLGVIKGTASRKGKLSKSPEHGVWLIGLKEG
                     RLYEAFGCPRLPLPVAGHPHRIGVYLHYEQGELTFFDADRPDDLRALYTFQADFQGKL
                     YPILDTCWHERGSNSLPMVLPPPSAPGHLTRAQV"
     exon            560..655
                     /gene="Trim50"
                     /inference="alignment:Splign:2.1.0"
     exon            656..886
                     /gene="Trim50"
                     /inference="alignment:Splign:2.1.0"
     exon            887..909
                     /gene="Trim50"
                     /inference="alignment:Splign:2.1.0"
     exon            910..1034
                     /gene="Trim50"
                     /inference="alignment:Splign:2.1.0"
     exon            1035..1943
                     /gene="Trim50"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 ggcagatact aggcaagtgg actctgtgtt cagctggatg ccccaggtct cagtgtcagc
       61 tgccccattc cgggaggaag aaagacttga gtgaccggaa agagctgcta gtctgaggcc
      121 ctagcgggag gcctgctgga ccaggatatc agctgtgtgc atggcttggc agctgactgt
      181 gccggaactc caggaccagc tgcagtgtcc catttgcctg gaggtcttca aagagcctct
      241 gatgcttcag tgtggccact cctactgcaa gaactgcctg gatagcttgt ctgaacacct
      301 ggattccgag ctgcgctgtc ctgtgtgtcg tcagtcagtt gactgcagca gctccccgcc
      361 taatgtctcc ctggcccggg tgatcgatgc tctgaggctc ccgggggaca cagagcccac
      421 cgtctgcgtg caccaccgaa accctctcag cctcttttgt gagaaagacc aggaattcat
      481 ctgtggtctc tgtggcctgc tgggctccca ccaacaccac agagtcacac cagtctccac
      541 ggtctacagc cgcatgaagg aagagcttgc aggccgcctg tctgagctga aggagcagca
      601 cagggacgtg gaggagcaca ttggcaaact ggtcaacaac aggacccgga ttattaatga
      661 gtctgacgtc ttcagctggg tgatccgaag agagttccag gagttgcacc acctggtgga
      721 tgaagagaaa gcccgctgcc tggagggggt ggagagccac acgcgtggcc tggtggcctc
      781 cctggacatg cagctggagc aggctcaggg tactcaagag cgactggccc aagccgagcg
      841 ggtgctggag cagtttggca atgagagtca ccatgagttc atccggaagt ttcactccat
      901 aacctccagg ggagaggtcc agcaggctcg gcctttggaa ggcgtcttca gccccatctc
      961 cttcaagccc gctctccacc aagctgacat caaactgacc gtgtggaaga ggctattccg
     1021 gaaagttctg ccagctccag aatctctcaa gctggacccg gctactgccc accctctcct
     1081 ggagctctcg aagggcaaca cagtggtgca ctgtggcctc ctggcccaga gacgcgccag
     1141 ccaacctgag cgctttgact acagcacctg tgtcctggct agcaagggct tctcctgggg
     1201 tcgccactac tgggaagtgg tggtggggag caagagtgac tggcgcttgg gggtcatcaa
     1261 gggcaccgcc agccgcaaag gcaagctgag caagtcccca gaacatgggg tatggctaat
     1321 aggcctgaaa gagggtcggc tgtatgaggc ttttggctgc ccacggctgc cactgcccgt
     1381 ggctggccac cctcatcgca ttggcgtcta cctacactat gagcagggtg agctcacgtt
     1441 ctttgatgct gaccgtcctg atgatcttcg ggcactctac actttccagg ctgacttcca
     1501 gggcaagctg taccctatcc tggacacatg ctggcatgag aggggcagca actcactgcc
     1561 catggtactg cccccaccca gtgcgcctgg ccacctcaca cgtgcacagg tataggccgt
     1621 cctggtactg tctgcccatt ggtctatctt gctagacaca gggatttgag gggttctgct
     1681 gggtctcaat gtttggactg cttgagaagg ttcttcacac ccacgtgtcc ctggaacatt
     1741 tatagcaggg gacagagcct ctccctcacc acctaggggt atgcatgcta cctcgcacct
     1801 taccagctcc actcaactgt gcttcctaac ccttccagca gagggcagac actgtccctc
     1861 acagatttaa tctttatcac tgggaccttc aaacatctat taaaaacaat aaatttgaca
     1921 tcttttctca ttaattatta cta
//
