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    TRIM40 tripartite motif containing 40 [ Homo sapiens (human) ]

    Gene ID: 135644, updated on 10-Dec-2024

    Summary

    Official Symbol
    TRIM40provided by HGNC
    Official Full Name
    tripartite motif containing 40provided by HGNC
    Primary source
    HGNC:HGNC:18736
    See related
    Ensembl:ENSG00000204614 MIM:616976; AllianceGenome:HGNC:18736
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    RNF35
    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]
    Expression
    Biased expression in small intestine (RPKM 3.6), duodenum (RPKM 3.4) and 4 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See TRIM40 in Genome Data Viewer
    Location:
    6p22.1
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (30136140..30148735)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (30000415..30013010)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (30103917..30116512)

    Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene TRIM31 antisense RNA 1 Neighboring gene tripartite motif containing 31 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr6:30080310-30081509 Neighboring gene small nucleolar RNA SNORA48 Neighboring gene tripartite motif containing 10 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:30139523-30140072 Neighboring gene tripartite motif containing 15 Neighboring gene tripartite motif containing 26 Neighboring gene PAIP1 pseudogene 1

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    EBI GWAS Catalog

    Description
    Genome-wide association study of proneness to anger.
    EBI GWAS Catalog

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General protein information

    Preferred Names
    E3 ubiquitin ligase TRIM40
    Names
    RING finger protein 35
    probable E3 NEDD8-protein ligase
    ring finger RNF35
    NP_001273562.1
    NP_619645.1
    XP_011512608.1
    XP_011512611.1
    XP_054184422.1
    XP_054184423.1
    XP_054184424.1
    XP_054185712.1
    XP_054185713.1
    XP_054186210.1
    XP_054186500.1
    XP_054186501.1
    XP_054186502.1
    XP_054186748.1
    XP_054186749.1
    XP_054186984.1
    XP_054186985.1
    XP_054187251.1
    XP_054187252.1
    XP_054210303.1
    XP_054210304.1
    XP_054210305.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    Genomic

    1. NG_033972.1 RefSeqGene

      Range
      5033..17621
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001286633.2NP_001273562.1  E3 ubiquitin ligase TRIM40 isoform a

      See identical proteins and their annotated locations for NP_001273562.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (a).
      Source sequence(s)
      AL669914, BC060785
      Consensus CDS
      CCDS69069.1
      UniProtKB/Swiss-Prot
      Q5SRJ6, Q5SS36, Q6P9F5, Q8TD96
      UniProtKB/TrEMBL
      A0A1U9X8S7, A0A1U9X8U1
      Related
      ENSP00000379826.1, ENST00000396581.6
      Conserved Domains (1) summary
      cd16583
      Location:1358
      RING-HC_TRIM40-C-V; RING finger, HC subclass, found in tripartite motif-containing protein 40 (TRIM40) and similar proteins
    2. NM_138700.4NP_619645.1  E3 ubiquitin ligase TRIM40 isoform b

      See identical proteins and their annotated locations for NP_619645.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks an exon in the 5' UTR and uses an alternate in-frame splice site in the 3' coding region, compared to variant 1, resulting in an isoform (b) that is shorter than isoform a.
      Source sequence(s)
      AF489517, AL669914, BC060785
      Consensus CDS
      CCDS4675.1
      UniProtKB/TrEMBL
      A0A140T9D5
      Related
      ENSP00000308310.4, ENST00000307859.4
      Conserved Domains (1) summary
      cd00162
      Location:1460
      RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000006.12 Reference GRCh38.p14 Primary Assembly

      Range
      30136140..30148735
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011514309.2XP_011512611.1  E3 ubiquitin ligase TRIM40 isoform X2

      See identical proteins and their annotated locations for XP_011512611.1

      UniProtKB/TrEMBL
      A0A1U9X8S7
      Conserved Domains (1) summary
      cd00162
      Location:1460
      RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...
    2. XM_011514306.2XP_011512608.1  E3 ubiquitin ligase TRIM40 isoform X1

      See identical proteins and their annotated locations for XP_011512608.1

      UniProtKB/Swiss-Prot
      Q5SRJ6, Q5SS36, Q6P9F5, Q8TD96
      UniProtKB/TrEMBL
      A0A1U9X8S7, A0A1U9X8U1
      Conserved Domains (1) summary
      cd16583
      Location:1358
      RING-HC_TRIM40-C-V; RING finger, HC subclass, found in tripartite motif-containing protein 40 (TRIM40) and similar proteins

    Reference GRCh38.p14 ALT_REF_LOCI_1

    Genomic

    1. NT_167244.2 Reference GRCh38.p14 ALT_REF_LOCI_1

      Range
      1394236..1406831
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054328447.1XP_054184422.1  E3 ubiquitin ligase TRIM40 isoform X1

      UniProtKB/Swiss-Prot
      Q5SRJ6, Q5SS36, Q6P9F5, Q8TD96
      UniProtKB/TrEMBL
      A0A1U9X8S7, A0A1U9X8U1
    2. XM_054328449.1XP_054184424.1  E3 ubiquitin ligase TRIM40 isoform X2

      UniProtKB/TrEMBL
      A0A1U9X8S7
    3. XM_054328448.1XP_054184423.1  E3 ubiquitin ligase TRIM40 isoform X1

      UniProtKB/Swiss-Prot
      Q5SRJ6, Q5SS36, Q6P9F5, Q8TD96
      UniProtKB/TrEMBL
      A0A1U9X8S7, A0A1U9X8U1

    Reference GRCh38.p14 ALT_REF_LOCI_2

    Genomic

    1. NT_113891.3 Reference GRCh38.p14 ALT_REF_LOCI_2

      Range
      1615945..1628543
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054329738.1XP_054185713.1  E3 ubiquitin ligase TRIM40 isoform X2

      UniProtKB/TrEMBL
      A0A1U9X8S7
    2. XM_054329737.1XP_054185712.1  E3 ubiquitin ligase TRIM40 isoform X1

      UniProtKB/Swiss-Prot
      Q5SRJ6, Q5SS36, Q6P9F5, Q8TD96
      UniProtKB/TrEMBL
      A0A1U9X8S7, A0A1U9X8U1

    Reference GRCh38.p14 ALT_REF_LOCI_3

    Genomic

    1. NT_167245.2 Reference GRCh38.p14 ALT_REF_LOCI_3

      Range
      1391916..1404652
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054330235.1XP_054186210.1  E3 ubiquitin ligase TRIM40 isoform X1

      UniProtKB/TrEMBL
      A0A0G2JIV5, A0A1U9X8S7

    Reference GRCh38.p14 ALT_REF_LOCI_4

    Genomic

    1. NT_167246.2 Reference GRCh38.p14 ALT_REF_LOCI_4

      Range
      1446862..1459457
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054330525.1XP_054186500.1  E3 ubiquitin ligase TRIM40 isoform X1

      UniProtKB/Swiss-Prot
      Q5SRJ6, Q5SS36, Q6P9F5, Q8TD96
      UniProtKB/TrEMBL
      A0A1U9X8S7, A0A1U9X8U1
    2. XM_054330527.1XP_054186502.1  E3 ubiquitin ligase TRIM40 isoform X2

      UniProtKB/TrEMBL
      A0A1U9X8S7
    3. XM_054330526.1XP_054186501.1  E3 ubiquitin ligase TRIM40 isoform X1

      UniProtKB/Swiss-Prot
      Q5SRJ6, Q5SS36, Q6P9F5, Q8TD96
      UniProtKB/TrEMBL
      A0A1U9X8S7, A0A1U9X8U1

    Reference GRCh38.p14 ALT_REF_LOCI_5

    Genomic

    1. NT_167247.2 Reference GRCh38.p14 ALT_REF_LOCI_5

      Range
      1480229..1492817
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054330773.1XP_054186748.1  E3 ubiquitin ligase TRIM40 isoform X1

      UniProtKB/TrEMBL
      A0A0G2JMU7, A0A1U9X8S7
    2. XM_054330774.1XP_054186749.1  E3 ubiquitin ligase TRIM40 isoform X2

      UniProtKB/TrEMBL
      A0A1U9X8S7

    Reference GRCh38.p14 ALT_REF_LOCI_6

    Genomic

    1. NT_167248.2 Reference GRCh38.p14 ALT_REF_LOCI_6

      Range
      1391268..1403864
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054331010.1XP_054186985.1  E3 ubiquitin ligase TRIM40 isoform X2

      UniProtKB/TrEMBL
      A0A1U9X8S7
    2. XM_054331009.1XP_054186984.1  E3 ubiquitin ligase TRIM40 isoform X1

      UniProtKB/Swiss-Prot
      Q5SRJ6, Q5SS36, Q6P9F5, Q8TD96
      UniProtKB/TrEMBL
      A0A1U9X8S7, A0A1U9X8U1

    Reference GRCh38.p14 ALT_REF_LOCI_7

    Genomic

    1. NT_167249.2 Reference GRCh38.p14 ALT_REF_LOCI_7

      Range
      1435079..1447667
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054331276.1XP_054187251.1  E3 ubiquitin ligase TRIM40 isoform X1

      UniProtKB/TrEMBL
      A0A0G2JMU7, A0A1U9X8S7
    2. XM_054331277.1XP_054187252.1  E3 ubiquitin ligase TRIM40 isoform X2

      UniProtKB/TrEMBL
      A0A1U9X8S7

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060930.1 Alternate T2T-CHM13v2.0

      Range
      30000415..30013010
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054354329.1XP_054210304.1  E3 ubiquitin ligase TRIM40 isoform X1

      UniProtKB/Swiss-Prot
      Q5SRJ6, Q5SS36, Q6P9F5, Q8TD96
      UniProtKB/TrEMBL
      A0A1U9X8S7, A0A1U9X8U1
    2. XM_054354330.1XP_054210305.1  E3 ubiquitin ligase TRIM40 isoform X2

      UniProtKB/TrEMBL
      A0A1U9X8S7
    3. XM_054354328.1XP_054210303.1  E3 ubiquitin ligase TRIM40 isoform X1

      UniProtKB/Swiss-Prot
      Q5SRJ6, Q5SS36, Q6P9F5, Q8TD96
      UniProtKB/TrEMBL
      A0A1U9X8S7, A0A1U9X8U1