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TRIM13 tripartite motif containing 13 [ Homo sapiens (human) ]

Gene ID: 10206, updated on 8-Jul-2021

Summary

Official Symbol
TRIM13provided by HGNC
Official Full Name
tripartite motif containing 13provided by HGNC
Primary source
HGNC:HGNC:9976
See related
Ensembl:ENSG00000204977 MIM:605661
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
CAR; LEU5; RFP2; DLEU5; RNF77
Summary
This gene encodes a member of the tripartite motif (TRIM) family. The TRIM motif includes three zinc-binding domains, a RING, a B-box type 1 and a B-box type 2, and a coiled-coil region. This gene is located on chromosome 13 within the minimal deletion region for B-cell chronic lymphocytic leukemia. Multiple alternatively spliced transcript variants have been found for this gene. [provided by RefSeq, Jul 2008]
Expression
Broad expression in testis (RPKM 17.7), bone marrow (RPKM 8.8) and 25 other tissues See more
Orthologs
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Genomic context

See TRIM13 in Genome Data Viewer
Location:
13q14.2
Exon count:
4
Annotation release Status Assembly Chr Location
109.20210514 current GRCh38.p13 (GCF_000001405.39) 13 NC_000013.11 (49997042..50018467)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 13 NC_000013.10 (50571178..50592603)

Chromosome 13 - NC_000013.11Genomic Context describing neighboring genes Neighboring gene SPRY domain containing 7 Neighboring gene deleted in lymphocytic leukemia 2 Neighboring gene microRNA 3613 Neighboring gene potassium channel regulator Neighboring gene microRNA 16-1 Neighboring gene microRNA 15a

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

Associated conditions

Description Tests
Genome-wide meta-analysis identifies 11 new loci for anthropometric traits and provides insights into genetic architecture.
GeneReviews: Not available

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables transcription coactivator activity IDA
Inferred from Direct Assay
more info
PubMed 
enables ubiquitin protein ligase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables ubiquitin protein ligase activity TAS
Traceable Author Statement
more info
 
enables ubiquitin-protein transferase activity IDA
Inferred from Direct Assay
more info
PubMed 
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
involved_in anatomical structure morphogenesis TAS
Traceable Author Statement
more info
PubMed 
involved_in endoplasmic reticulum mannose trimming TAS
Traceable Author Statement
more info
 
involved_in innate immune response IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in innate immune response IDA
Inferred from Direct Assay
more info
PubMed 
involved_in negative regulation of viral release from host cell IDA
Inferred from Direct Assay
more info
PubMed 
involved_in negative regulation of viral transcription IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of I-kappaB kinase/NF-kappaB signaling HMP PubMed 
involved_in positive regulation of I-kappaB kinase/NF-kappaB signaling IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in positive regulation of I-kappaB kinase/NF-kappaB signaling IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of NF-kappaB transcription factor activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in positive regulation of NF-kappaB transcription factor activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of cell death IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of macroautophagy IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in positive regulation of macroautophagy IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of transcription, DNA-templated IEA
Inferred from Electronic Annotation
more info
 
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process IDA
Inferred from Direct Assay
more info
PubMed 
involved_in protein autoubiquitination IDA
Inferred from Direct Assay
more info
PubMed 
involved_in protein ubiquitination IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in response to gamma radiation IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in ubiquitin-dependent ERAD pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in ubiquitin-dependent ERAD pathway IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in endoplasmic reticulum membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in endoplasmic reticulum membrane TAS
Traceable Author Statement
more info
 
located_in endoplasmic reticulum quality control compartment IEA
Inferred from Electronic Annotation
more info
 
located_in integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
located_in perinuclear endoplasmic reticulum IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
E3 ubiquitin-protein ligase TRIM13
Names
B-cell chronic lymphocytic leukemia tumor suppressor Leu5
CLL-associated RING finger
RING finger protein 77
RING-type E3 ubiquitin transferase TRIM13
leukemia-associated protein 5
putative tumor suppressor RFP2
ret finger protein 2
tripartite motif protein 13
tripartite motif-containing protein 13
NP_001007279.1
NP_005789.2
NP_434698.1
NP_998755.1

NCBI Reference Sequences (RefSeq)

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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.

mRNA and Protein(s)

  1. NM_001007278.3NP_001007279.1  E3 ubiquitin-protein ligase TRIM13 isoform 2

    See identical proteins and their annotated locations for NP_001007279.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) has an additional internal exon, which contains an upstream in-frame AUG start codon compared to variant 1. The encoded protein (isoform 2) has a longer N-terminus, as compared to isoform 1.
    Source sequence(s)
    AL832695, AY455758, AY764035, KF455768
    Consensus CDS
    CCDS41888.1
    UniProtKB/Swiss-Prot
    O60858
    UniProtKB/TrEMBL
    L7MTJ6
    Related
    ENSP00000348299.4, ENST00000356017.8
    Conserved Domains (2) summary
    smart00336
    Location:93134
    BBOX; B-Box-type zinc finger
    cd00162
    Location:1264
    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. NM_005798.5NP_005789.2  E3 ubiquitin-protein ligase TRIM13 isoform 1

    See identical proteins and their annotated locations for NP_005789.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the shortest transcript and encodes the same protein (isoform 1) as variants 2 and 3.
    Source sequence(s)
    AF241850, AL832695, AY455758, BI668033, KF455768
    Consensus CDS
    CCDS9423.1
    UniProtKB/Swiss-Prot
    O60858
    UniProtKB/TrEMBL
    A0A024RDU3, L7MTJ6
    Related
    ENSP00000412943.2, ENST00000420995.6
    Conserved Domains (3) summary
    smart00336
    Location:90131
    BBOX; B-Box-type zinc finger
    pfam12252
    Location:163234
    SidE; Dot/Icm substrate protein
    cd16762
    Location:561
    RING-HC_TRIM13_C-V; RING finger, HC subclass, found in tripartite motif-containing protein 13 (TRIM13) and similar proteins
  3. NM_052811.4NP_434698.1  E3 ubiquitin-protein ligase TRIM13 isoform 1

    See identical proteins and their annotated locations for NP_434698.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared variant 1. Variants 1, 2 and 3 encode the same protein (isoform 1).
    Source sequence(s)
    AL832695, AY191002, AY455758, BI668033, KF455768
    Consensus CDS
    CCDS9423.1
    UniProtKB/Swiss-Prot
    O60858
    UniProtKB/TrEMBL
    A0A024RDU3, L7MTJ6
    Related
    ENSP00000399206.2, ENST00000457662.2
    Conserved Domains (3) summary
    smart00336
    Location:90131
    BBOX; B-Box-type zinc finger
    pfam12252
    Location:163234
    SidE; Dot/Icm substrate protein
    cd16762
    Location:561
    RING-HC_TRIM13_C-V; RING finger, HC subclass, found in tripartite motif-containing protein 13 (TRIM13) and similar proteins
  4. NM_213590.3NP_998755.1  E3 ubiquitin-protein ligase TRIM13 isoform 1

    See identical proteins and their annotated locations for NP_998755.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. Variants 1, 2 and 3 encode the same protein (isoform 1).
    Source sequence(s)
    AL832695, AY455758, KF455768
    Consensus CDS
    CCDS9423.1
    UniProtKB/Swiss-Prot
    O60858
    UniProtKB/TrEMBL
    A0A024RDU3, L7MTJ6
    Related
    ENSP00000367424.3, ENST00000378182.4
    Conserved Domains (3) summary
    smart00336
    Location:90131
    BBOX; B-Box-type zinc finger
    pfam12252
    Location:163234
    SidE; Dot/Icm substrate protein
    cd16762
    Location:561
    RING-HC_TRIM13_C-V; RING finger, HC subclass, found in tripartite motif-containing protein 13 (TRIM13) and similar proteins

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210514

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000013.11 Reference GRCh38.p13 Primary Assembly

    Range
    49997042..50018467
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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