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Aliases for TRIM13 Gene

Aliases for TRIM13 Gene

  • Tripartite Motif Containing 13 2 3 5
  • Ret Finger Protein 2 2 3 4
  • B-Cell Chronic Lymphocytic Leukemia Tumor Suppressor Leu5 3 4
  • Tripartite Motif-Containing Protein 13 3 4
  • Tripartite Motif-Containing 13 2 3
  • Putative Tumor Suppressor RFP2 3 4
  • Leukemia-Associated Protein 5 3 4
  • RING Finger Protein 77 3 4
  • RNF77 3 4
  • RFP2 3 4
  • LEU5 3 4
  • Tripartite Motif Protein 13 3
  • CLL-Associated RING Finger 3
  • EC 6.3.2.- 4
  • DLEU5 3
  • CAR 3

External Ids for TRIM13 Gene

Previous HGNC Symbols for TRIM13 Gene

  • RFP2

Previous GeneCards Identifiers for TRIM13 Gene

  • GC13P049472
  • GC13P050570
  • GC13P031366

Summaries for TRIM13 Gene

Entrez Gene Summary for TRIM13 Gene

  • 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]

GeneCards Summary for TRIM13 Gene

TRIM13 (Tripartite Motif Containing 13) is a Protein Coding gene. Diseases associated with TRIM13 include Chronic Lymphocytic Leukemia and Pain Agnosia. GO annotations related to this gene include ligase activity and signal transducer activity. An important paralog of this gene is MID1.

UniProtKB/Swiss-Prot for TRIM13 Gene

  • E3 ubiquitin ligase involved in the retrotranslocation and turnover of membrane and secretory proteins from the ER through a set of processes named ER-associated degradation (ERAD). This process acts on misfolded proteins as well as in the regulated degradation of correctly folded proteins. Enhances ionizing radiation-induced p53/TP53 stability and apoptosis via ubiquitinating MDM2 and AKT1 and decreasing AKT1 kinase activity through MDM2 and AKT1 proteasomal degradation. Regulates ER stress-induced autophagy, and may act as a tumor suppressor.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TRIM13 Gene

Genomics for TRIM13 Gene

Regulatory Elements for TRIM13 Gene

Enhancers for TRIM13 Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around TRIM13 on UCSC Golden Path with GeneCards custom track

Promoters for TRIM13 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around TRIM13 on UCSC Golden Path with GeneCards custom track

Genomic Location for TRIM13 Gene

Chromosome:
13
Start:
49,995,888 bp from pter
End:
50,020,481 bp from pter
Size:
24,594 bases
Orientation:
Plus strand

Genomic View for TRIM13 Gene

Genes around TRIM13 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TRIM13 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TRIM13 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TRIM13 Gene

Proteins for TRIM13 Gene

  • Protein details for TRIM13 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O60858-TRI13_HUMAN
    Recommended name:
    E3 ubiquitin-protein ligase TRIM13
    Protein Accession:
    O60858
    Secondary Accessions:
    • B2RB49
    • Q5UBW0
    • Q5W0U8
    • Q5W0U9
    • Q9BQ47
    • Q9C021

    Protein attributes for TRIM13 Gene

    Size:
    407 amino acids
    Molecular mass:
    46988 Da
    Quaternary structure:
    • Interacts (via C-terminal domain) with VCP. Interacts with AKT1; the interaction ubiquitinates AKT1 and leads to its proteasomal degradation. Interacts with MDM2; the interaction ubiquitinates AKT1 and leads to its proteasomal degradation. Interacts with p62/SQSTM1.
    Miscellaneous:
    • Located on chromosome 13 within the minimal deletion region for B-cell chronic lymphocytic leukemia.

    Alternative splice isoforms for TRIM13 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TRIM13 Gene

Proteomics data for TRIM13 Gene at MOPED

Post-translational modifications for TRIM13 Gene

  • Auto-ubiquitinated; requires the RING-type zinc finger. Auto-polyubiquitination leads to proteasomal degradation.
  • Ubiquitination at Lys 125
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for TRIM13 Gene

Domains & Families for TRIM13 Gene

Gene Families for TRIM13 Gene

Suggested Antigen Peptide Sequences for TRIM13 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

O60858

UniProtKB/Swiss-Prot:

TRI13_HUMAN :
  • The coiled-coil domain is required for the induction of autophagy during endoplasmic reticulum (ER) stress.
  • Belongs to the TRIM/RBCC family.
  • Contains 1 B box-type zinc finger.
Domain:
  • The coiled-coil domain is required for the induction of autophagy during endoplasmic reticulum (ER) stress.
  • The RING-type zinc finger is required for auto-polyubiquitination.
  • The C-terminal domain transmembrane domain is indispensable for the localization to the ER.
Family:
  • Belongs to the TRIM/RBCC family.
Similarity:
  • Contains 1 B box-type zinc finger.
  • Contains 1 RING-type zinc finger.
genes like me logo Genes that share domains with TRIM13: view

Function for TRIM13 Gene

Molecular function for TRIM13 Gene

UniProtKB/Swiss-Prot Function:
E3 ubiquitin ligase involved in the retrotranslocation and turnover of membrane and secretory proteins from the ER through a set of processes named ER-associated degradation (ERAD). This process acts on misfolded proteins as well as in the regulated degradation of correctly folded proteins. Enhances ionizing radiation-induced p53/TP53 stability and apoptosis via ubiquitinating MDM2 and AKT1 and decreasing AKT1 kinase activity through MDM2 and AKT1 proteasomal degradation. Regulates ER stress-induced autophagy, and may act as a tumor suppressor.

Enzyme Numbers (IUBMB) for TRIM13 Gene

Gene Ontology (GO) - Molecular Function for TRIM13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004842 ubiquitin-protein transferase activity IDA 17314412
genes like me logo Genes that share ontologies with TRIM13: view
genes like me logo Genes that share phenotypes with TRIM13: view

Animal Model Products

CRISPR Products

miRNA for TRIM13 Gene

miRTarBase miRNAs that target TRIM13

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for TRIM13 Gene

Localization for TRIM13 Gene

Subcellular locations from UniProtKB/Swiss-Prot for TRIM13 Gene

Endoplasmic reticulum membrane; Single-pass membrane protein. Note=Concentrates and colocalizes with p62/SQSTM1 and ZFYVE1 at the perinuclear endoplasmic reticulum.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for TRIM13 Gene COMPARTMENTS Subcellular localization image for TRIM13 gene
Compartment Confidence
endoplasmic reticulum 5
nucleus 3
plasma membrane 2
cytosol 1
extracellular 1
golgi apparatus 1
lysosome 1
mitochondrion 1
peroxisome 1
vacuole 1

No data available for Gene Ontology (GO) - Cellular Components for TRIM13 Gene

Pathways & Interactions for TRIM13 Gene

SuperPathways for TRIM13 Gene

No Data Available

UniProtKB/Swiss-Prot O60858-TRI13_HUMAN

  • Pathway: Protein modification; protein ubiquitination.

Interacting Proteins for TRIM13 Gene

Gene Ontology (GO) - Biological Process for TRIM13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007165 signal transduction IMP 12761501
GO:0016239 positive regulation of macroautophagy IDA 22178386
GO:0051092 positive regulation of NF-kappaB transcription factor activity IMP 23077300
GO:0051865 protein autoubiquitination IDA 17314412
GO:1902187 negative regulation of viral release from host cell IDA 18248090
genes like me logo Genes that share ontologies with TRIM13: view

No data available for Pathways by source and SIGNOR curated interactions for TRIM13 Gene

Drugs & Compounds for TRIM13 Gene

(4) Drugs for TRIM13 Gene - From: DrugBank and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
dihydromorphine Experimental, Illicit Pharma Full agonist, Agonist, Target, agonist 0
Diprenorphine Experimental, Illicit Pharma Full agonist, Agonist, Target 4
Etorphine Illicit Pharma Full agonist, Agonist, Target, agonist 0
genes like me logo Genes that share compounds with TRIM13: view

Transcripts for TRIM13 Gene

Unigene Clusters for TRIM13 Gene

Tripartite motif containing 13:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for TRIM13 Gene

No ASD Table

Relevant External Links for TRIM13 Gene

GeneLoc Exon Structure for
TRIM13
ECgene alternative splicing isoforms for
TRIM13

Expression for TRIM13 Gene

mRNA expression in normal human tissues for TRIM13 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for TRIM13 Gene

This gene is overexpressed in Bone (48.6) and Peripheral blood mononuclear cells (11.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MOPED, and MaxQB for TRIM13 Gene



SOURCE GeneReport for Unigene cluster for TRIM13 Gene Hs.436922

genes like me logo Genes that share expression patterns with TRIM13: view

Protein tissue co-expression partners for TRIM13 Gene

- Elite partner

Primer Products

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for TRIM13 Gene

Orthologs for TRIM13 Gene

This gene was present in the common ancestor of chordates.

Orthologs for TRIM13 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia TRIM13 35
  • 90.25 (n)
  • 92.38 (a)
TRIM13 36
  • 93 (a)
OneToOne
dog
(Canis familiaris)
Mammalia TRIM13 35
  • 91.73 (n)
  • 92.14 (a)
TRIM13 36
  • 83 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Trim13 35
  • 86.49 (n)
  • 88.94 (a)
Trim13 16
Trim13 36
  • 89 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia TRIM13 35
  • 99.51 (n)
  • 99.26 (a)
TRIM13 36
  • 99 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Trim13 35
  • 85.5 (n)
  • 87.47 (a)
oppossum
(Monodelphis domestica)
Mammalia TRIM13 36
  • 82 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia TRIM13 36
  • 76 (a)
OneToOne
chicken
(Gallus gallus)
Aves TRIM13 35
  • 72.86 (n)
  • 75.06 (a)
TRIM13 36
  • 74 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia TRIM13 36
  • 70 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100492997 35
  • 62.99 (n)
  • 60.05 (a)
zebrafish
(Danio rerio)
Actinopterygii trim13 35
  • 55.73 (n)
  • 50.89 (a)
trim13 36
  • 48 (a)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 21 (a)
OneToMany
Species with no ortholog for TRIM13:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for TRIM13 Gene

ENSEMBL:
Gene Tree for TRIM13 (if available)
TreeFam:
Gene Tree for TRIM13 (if available)

Paralogs for TRIM13 Gene

(3) SIMAP similar genes for TRIM13 Gene using alignment to 2 proteins:

Pseudogenes.org Pseudogenes for TRIM13 Gene

genes like me logo Genes that share paralogs with TRIM13: view

Variants for TRIM13 Gene

Sequence variations from dbSNP and Humsavar for TRIM13 Gene

SNP ID Clin Chr 13 pos Sequence Context AA Info Type
VAR_013512 -

Structural Variations from Database of Genomic Variants (DGV) for TRIM13 Gene

Variant ID Type Subtype PubMed ID
esv2747402 CNV Deletion 23290073
esv2661834 CNV Deletion 23128226

Variation tolerance for TRIM13 Gene

Residual Variation Intolerance Score: 31.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.38; 27.21% of all genes are more intolerant (likely to be disease-causing)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Relevant External Links for TRIM13 Gene

Disorders for TRIM13 Gene

MalaCards: The human disease database

(6) MalaCards diseases for TRIM13 Gene - From: DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
chronic lymphocytic leukemia
  • cll
pain agnosia
  • analgesia
agnosia
  • alexia
autonomic nervous system neoplasm
  • tumor of autonomic nervous system
peripheral nervous system neoplasm
  • neoplasm of peripheral nerve
- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for TRIM13

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
TRIM13
genes like me logo Genes that share disorders with TRIM13: view

No data available for UniProtKB/Swiss-Prot and Genatlas for TRIM13 Gene

Publications for TRIM13 Gene

  1. A cosmid and cDNA fine physical map of a human chromosome 13q14 region frequently lost in B-cell chronic lymphocytic leukemia and identification of a new putative tumor suppressor gene, Leu5. (PMID: 9599022) Kapanadze B. … Yankovsky N. (FEBS Lett. 1998) 2 3 4 23 67
  2. The RBCC gene RFP2 (Leu5) encodes a novel transmembrane E3 ubiquitin ligase involved in ERAD. (PMID: 17314412) Lerner M. … Sangfelt O. (Mol. Biol. Cell 2007) 3 23
  3. Nucleotide sequence, transcription map, and mutation analysis of the 13q14 chromosomal region deleted in B-cell chronic lymphocytic leukemia. (PMID: 11264177) Migliazza A. … Dalla-Favera R. (Blood 2001) 3 23
  4. A Dynamic Protein Interaction Landscape of the Human Centrosome-Cilium Interface. (PMID: 26638075) Gupta G.D. … Pelletier L. (Cell 2015) 3
  5. Unveiling the degradative route of the V247M I+-sarcoglycan mutant responsible for LGMD-2D. (PMID: 24565866) Bianchini E. … SandonA D. (Hum. Mol. Genet. 2014) 3

Products for TRIM13 Gene

Sources for TRIM13 Gene

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