LOCUS       NM_001286633            2047 bp    mRNA    linear   PRI 29-OCT-2024
DEFINITION  Homo sapiens tripartite motif containing 40 (TRIM40), transcript
            variant 1, mRNA.
ACCESSION   NM_001286633 XM_005248855 XM_005272772 XM_005274838 XM_005274918
            XM_005275081 XM_005275214 XM_005275350 XM_005275512
VERSION     NM_001286633.2
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 2047)
  AUTHORS   Hu,F., Zhao,L., Wang,J., Li,X., Xue,Z., Ma,Y., Zheng,M., Chen,C.,
            Tong,M., Guo,X., Li,H., Jin,H., Xie,Q., Zhang,X., Huang,C. and
            Huang,H.
  TITLE     TRIM40 interacts with ROCK1 directly and inhibits colorectal cancer
            cell proliferation through the c-Myc/p21 axis
  JOURNAL   Biochim Biophys Acta Mol Cell Res 1871 (8), 119855 (2024)
   PUBMED   39357549
  REMARK    GeneRIF: TRIM40 interacts with ROCK1 directly and inhibits
            colorectal cancer cell proliferation through the c-Myc/p21 axis.
REFERENCE   2  (bases 1 to 2047)
  AUTHORS   Kang,S., Kim,J., Park,A., Koh,M., Shin,W., Park,G., Lee,T.A.,
            Kim,H.J., Han,H., Kim,Y., Choi,M.K., Park,J.H., Lee,E., Cho,H.S.,
            Park,H.W., Cheon,J.H., Lee,S. and Park,B.
  TITLE     TRIM40 is a pathogenic driver of inflammatory bowel disease
            subverting intestinal barrier integrity
  JOURNAL   Nat Commun 14 (1), 700 (2023)
   PUBMED   36755029
  REMARK    GeneRIF: TRIM40 is a pathogenic driver of inflammatory bowel
            disease subverting intestinal barrier integrity.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 2047)
  AUTHORS   Shen,J., Wu,Q., Liang,T., Zhang,J., Bai,J., Yuan,M. and Shen,P.
  TITLE     TRIM40 inhibits IgA1-induced proliferation of glomerular mesangial
            cells by inactivating NLRP3 inflammasome through ubiquitination
  JOURNAL   Mol Immunol 140, 225-232 (2021)
   PUBMED   34763147
  REMARK    GeneRIF: TRIM40 inhibits IgA1-induced proliferation of glomerular
            mesangial cells by inactivating NLRP3 inflammasome through
            ubiquitination.
REFERENCE   4  (bases 1 to 2047)
  AUTHORS   Mick,E., McGough,J., Deutsch,C.K., Frazier,J.A., Kennedy,D. and
            Goldberg,R.J.
  TITLE     Genome-wide association study of proneness to anger
  JOURNAL   PLoS One 9 (1), e87257 (2014)
   PUBMED   24489884
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 2047)
  AUTHORS   Noguchi,K., Okumura,F., Takahashi,N., Kataoka,A., Kamiyama,T.,
            Todo,S. and Hatakeyama,S.
  TITLE     TRIM40 promotes neddylation of IKKgamma and is downregulated in
            gastrointestinal cancers
  JOURNAL   Carcinogenesis 32 (7), 995-1004 (2011)
   PUBMED   21474709
  REMARK    GeneRIF: findings suggest that TRIM40 inhibits NF-kappaB activity
            via neddylation of inhibitor of nuclear factor kappaB kinase
            subunit gamma and that TRIM40 prevents inflammation-associated
            carcinogenesis in the gastrointestinal tract
REFERENCE   6  (bases 1 to 2047)
  AUTHORS   Cree,B.A., Rioux,J.D., McCauley,J.L., Gourraud,P.A., Goyette,P.,
            McElroy,J., De Jager,P., Santaniello,A., Vyse,T.J., Gregersen,P.K.,
            Mirel,D., Hafler,D.A., Haines,J.L., Pericak-Vance,M.A.,
            Compston,A., Sawcer,S.J., Oksenberg,J.R. and Hauser,S.L.
  CONSRTM   IMAGEN; IMSGC
  TITLE     A major histocompatibility Class I locus contributes to multiple
            sclerosis susceptibility independently from HLA-DRB1*15:01
  JOURNAL   PLoS One 5 (6), e11296 (2010)
   PUBMED   20593013
  REMARK    GeneRIF: Observational study of gene-disease association. (HuGE
            Navigator)
            Publication Status: Online-Only
REFERENCE   7  (bases 1 to 2047)
  AUTHORS   Barcellos,L.F., May,S.L., Ramsay,P.P., Quach,H.L., Lane,J.A.,
            Nititham,J., Noble,J.A., Taylor,K.E., Quach,D.L., Chung,S.A.,
            Kelly,J.A., Moser,K.L., Behrens,T.W., Seldin,M.F., Thomson,G.,
            Harley,J.B., Gaffney,P.M. and Criswell,L.A.
  TITLE     High-density SNP screening of the major histocompatibility complex
            in systemic lupus erythematosus demonstrates strong evidence for
            independent susceptibility regions
  JOURNAL   PLoS Genet 5 (10), e1000696 (2009)
   PUBMED   19851445
  REMARK    GeneRIF: Observational study of gene-disease association. (HuGE
            Navigator)
REFERENCE   8  (bases 1 to 2047)
  AUTHORS   Shiina,T., Ota,M., Shimizu,S., Katsuyama,Y., Hashimoto,N.,
            Takasu,M., Anzai,T., Kulski,J.K., Kikkawa,E., Naruse,T., Kimura,N.,
            Yanagiya,K., Watanabe,A., Hosomichi,K., Kohara,S., Iwamoto,C.,
            Umehara,Y., Meyer,A., Wanner,V., Sano,K., Macquin,C., Ikeo,K.,
            Tokunaga,K., Gojobori,T., Inoko,H. and Bahram,S.
  TITLE     Rapid evolution of major histocompatibility complex class I genes
            in primates generates new disease alleles in humans via hitchhiking
            diversity
  JOURNAL   Genetics 173 (3), 1555-1570 (2006)
   PUBMED   16702430
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from BC060785.1 and AL669914.2.
            This sequence is a reference standard in the RefSeqGene project.
            
            On Nov 22, 2018 this sequence version replaced NM_001286633.1.
            
            Summary: This gene encodes a member of the tripartite motif (TRIM)
            protein family. The encoded protein may play a role as a negative
            regulator against inflammation and carcinogenesis in the
            gastrointestinal tract. Alternatively spliced transcript variants
            that encode different protein isoforms have been described.
            [provided by RefSeq, Feb 2014].
            
            Transcript Variant: This variant (1) represents the longer
            transcript and encodes the longer isoform (a).
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data to make the sequence consistent with the
            reference genome assembly. The genomic coordinates used for the
            transcript record were based on transcript alignments.
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC060785.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1968540, SAMEA2142348
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000396581.6/ ENSP00000379826.1
            RefSeq Select criteria :: based on conservation, longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-1619              BC060785.1         33-1651
            1620-1906           AL669914.2         142934-143220
            1907-2047           BC060785.1         1939-2079
FEATURES             Location/Qualifiers
     source          1..2047
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="6"
                     /map="6p22.1"
     gene            1..2047
                     /gene="TRIM40"
                     /gene_synonym="RNF35"
                     /note="tripartite motif containing 40"
                     /db_xref="GeneID:135644"
                     /db_xref="HGNC:HGNC:18736"
                     /db_xref="MIM:616976"
     exon            1..50
                     /gene="TRIM40"
                     /gene_synonym="RNF35"
                     /inference="alignment:Splign:2.1.0"
     exon            51..699
                     /gene="TRIM40"
                     /gene_synonym="RNF35"
                     /inference="alignment:Splign:2.1.0"
     CDS             355..1131
                     /gene="TRIM40"
                     /gene_synonym="RNF35"
                     /EC_number="2.3.2.27"
                     /note="isoform a is encoded by transcript variant 1; ring
                     finger RNF35; RING finger protein 35; probable E3
                     NEDD8-protein ligase; E3 ubiquitin ligase TRIM40"
                     /codon_start=1
                     /product="E3 ubiquitin ligase TRIM40 isoform a"
                     /protein_id="NP_001273562.1"
                     /db_xref="CCDS:CCDS69069.1"
                     /db_xref="GeneID:135644"
                     /db_xref="HGNC:HGNC:18736"
                     /db_xref="MIM:616976"
                     /translation="MIPLQKDNQEEGVCPICQESLKEAVSTNCGHLFCRVCLTQHVEK
                     ASASGVFCCPLCRKPCSEEVLGTGYICPNHQKRVCRFCEESRLLLCVECLVSPEHMSH
                     HELTIENALSHYKERLNRRSRKLRKDIAELQRLKAQQEKKLQALQFQVDHGNHRLEAG
                     PESQHQTREQLGALPQQWLGQLEHMPAEAARILDISRAVTQLRSLVIDLERTAKELDT
                     NTLKNAGDLLNRSAPQKLEVIYPQLEKGVSELLLQPPQKL"
     exon            700..795
                     /gene="TRIM40"
                     /gene_synonym="RNF35"
                     /inference="alignment:Splign:2.1.0"
     exon            796..1020
                     /gene="TRIM40"
                     /gene_synonym="RNF35"
                     /inference="alignment:Splign:2.1.0"
     exon            1021..1043
                     /gene="TRIM40"
                     /gene_synonym="RNF35"
                     /inference="alignment:Splign:2.1.0"
     exon            1044..2047
                     /gene="TRIM40"
                     /gene_synonym="RNF35"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2029..2034
                     /regulatory_class="polyA_signal_sequence"
                     /gene="TRIM40"
                     /gene_synonym="RNF35"
                     /note="hexamer: AATAAA"
     polyA_site      2047
                     /gene="TRIM40"
                     /gene_synonym="RNF35"
                     /note="major polyA site"
ORIGIN      
        1 aggtctggag ccagagaaga tgatctgaaa ttgtagcagg agaaattgag gtgtatgaaa
       61 aataatttca agtttaacaa acacaaggaa accgcagggt ccatgtcaaa gctgatgagc
      121 tatttctgaa actcgtgcag aattgtggtt tgtgtggtct atgtcacggc acccttgagg
      181 gagagtgggc aattgcctga acttggaggc tgtgtcctgt ccccaggctg ctccagggct
      241 gcctccttcc gactgggcct tcttatctgg gactgttgag ggcaacaggc cttccgaaga
      301 ccagtgaaga aggaggccct gcaaacagga ggctgacagg gtaggaacga ggccatgatc
      361 cctttgcaga aggacaacca ggaggagggt gtctgcccca tctgccagga gagcctgaag
      421 gaggccgtga gcaccaactg cggacatctc ttctgtcgag tgtgcctgac acagcatgtg
      481 gagaaggcct cagcctctgg ggtcttctgc tgccccctct gccggaagcc ctgttctgag
      541 gaggtgctag ggacaggcta tatctgcccc aaccaccaga agagggtgtg caggttctgt
      601 gaggagagca gacttcttct atgtgtggaa tgcctggtgt cccctgaaca catgtctcat
      661 catgaactga ccattgaaaa tgccctcagc cactacaagg aacgactcaa tcgccggagc
      721 aggaagctca gaaaggacat tgcagaactt cagcggctca aggctcagca ggagaagaaa
      781 ctgcaggctc tgcagtttca ggtagaccac gggaaccaca ggctggaggc tgggccggag
      841 agccagcacc aaaccaggga acagctgggt gccctccctc agcagtggct gggccagctg
      901 gagcacatgc cagcagaagc ggccagaatc cttgacatct ccagggcagt aacacagctc
      961 agaagcctgg tcattgatct ggaaaggacg gccaaggaat tagacaccaa cacactgaag
     1021 aatgctggtg acttactgaa caggagtgct ccacagaaat tagaggttat ttatccccag
     1081 ttggagaaag gagtcagtga attgcttctt cagccccctc agaagctctg acctgttcat
     1141 ccctgggaca cctcacttca ggctcacctc agcctcctct ctctccttcc tccaacctgt
     1201 ccaggccccc actgggtcta cccagtgcat cttcgggcct gccagctcct gaacatgtca
     1261 ccatttcttc atgtccacag tcatcacctg atgcctgacc ctctgactct tggacgatag
     1321 ccagcctcct tccaggacag gctcatgctt ggggctgcca ctgtggaggt cggggcccat
     1381 ggtctccagg agcatttgtg aaatctccat tttgcctgta aactgatggt agtgcccatc
     1441 tctcacaatc tcattcaaat aggatcctcc aggcctctga atggcccgag ctcatcagca
     1501 gtgacaccac ctcacatgtg gagcccagct gagttcctgc agtacttgtt gtctgtacca
     1561 ctcacctggc acttatttat tattgttgtg gaagacagac tcaaagacag cctcccttca
     1621 tgatcctcac ctcttggaat tcatgccctt gtttggtccc ctccccttga gtgtaagtgg
     1681 gatctgtgac ttgcttctaa tgaatggaat aaggcaaagg tgatagggtg tcactctggc
     1741 aactgtgttg cattgtatag aactcctcct tgctggccca cccttttaga gcccctccta
     1801 ggagccaaga gcagcttcca gccaacaaca agcagaggcc ctcagtcttg tggctgcaag
     1861 aacctgaatt ctgccaacaa cccgagtgag cttggaagca gattcttccc caactgagcc
     1921 ggataagaac ctagtccagc caacaccttg attatagtct tgtgagtacc taagctgagg
     1981 acccagtgaa gctgtgccaa aatttcccac ccacagaaac agtgtgacaa taaatgtgtg
     2041 tgtgttt
//
