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Aliases for TRIM39 Gene

Aliases for TRIM39 Gene

  • Tripartite Motif Containing 39 2 3 5
  • Tripartite Motif-Containing Protein 39 3 4
  • Tripartite Motif-Containing 39 2 3
  • Testis-Abundant Finger Protein 3 4
  • Ring Finger Protein 23 2 3
  • RNF23 3 4
  • TFP 3 4
  • RING Finger Protein 23 4
  • EC 6.3.2.- 4
  • TRIM39B 3

External Ids for TRIM39 Gene

Previous HGNC Symbols for TRIM39 Gene

  • RNF23

Previous GeneCards Identifiers for TRIM39 Gene

  • GC06P030352
  • GC06P030065
  • GC06P030401
  • GC06P030403
  • GC06P030294
  • GC06P030092
  • GC06P030331
  • GC06P030441

Summaries for TRIM39 Gene

Entrez Gene Summary for TRIM39 Gene

  • The protein encoded by this gene is 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. The function of this protein has not been identified. This gene lies within the major histocompatibility complex class I region on chromosome 6. Alternate splicing results in two transcript variants encoding different isoforms. [provided by RefSeq, Jul 2008]

GeneCards Summary for TRIM39 Gene

TRIM39 (Tripartite Motif Containing 39) is a Protein Coding gene. Among its related pathways are Immune System and Antigen processing- Ubiquitination and Proteasome degradation. GO annotations related to this gene include identical protein binding and ligase activity. An important paralog of this gene is TRIM58.

UniProtKB/Swiss-Prot for TRIM39 Gene

  • E3 ubiquitin-protein ligase. May facilitate apoptosis by inhibiting APC/C-Cdh1-mediated poly-ubiquitination and subsequent proteasome-mediated degradation of the pro-apoptotic protein MOAP1.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TRIM39 Gene

Genomics for TRIM39 Gene

Regulatory Elements for TRIM39 Gene

Promoters for TRIM39 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around TRIM39 on UCSC Golden Path with GeneCards custom track

Genomic Location for TRIM39 Gene

Chromosome:
6
Start:
30,326,479 bp from pter
End:
30,343,729 bp from pter
Size:
17,251 bases
Orientation:
Plus strand

Genomic View for TRIM39 Gene

Genes around TRIM39 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TRIM39 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TRIM39 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

Proteins for TRIM39 Gene

  • Protein details for TRIM39 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9HCM9-TRI39_HUMAN
    Recommended name:
    E3 ubiquitin-protein ligase TRIM39
    Protein Accession:
    Q9HCM9
    Secondary Accessions:
    • Q5STG3
    • Q5STG4
    • Q76BL3
    • Q8IYT9
    • Q96IB6

    Protein attributes for TRIM39 Gene

    Size:
    518 amino acids
    Molecular mass:
    59690 Da
    Quaternary structure:
    • Interacts with MOAP1.

    Three dimensional structures from OCA and Proteopedia for TRIM39 Gene

    Alternative splice isoforms for TRIM39 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TRIM39 Gene

Proteomics data for TRIM39 Gene at MOPED

Post-translational modifications for TRIM39 Gene

Antibody Products

No data available for DME Specific Peptides for TRIM39 Gene

Domains & Families for TRIM39 Gene

Gene Families for TRIM39 Gene

Graphical View of Domain Structure for InterPro Entry

Q9HCM9

UniProtKB/Swiss-Prot:

TRI39_HUMAN :
  • Contains 1 B30.2/SPRY domain.
  • Belongs to the TRIM/RBCC family.
  • Contains 1 B box-type zinc finger.
Domain:
  • Contains 1 B30.2/SPRY domain.
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 TRIM39: view

Function for TRIM39 Gene

Molecular function for TRIM39 Gene

UniProtKB/Swiss-Prot Function:
E3 ubiquitin-protein ligase. May facilitate apoptosis by inhibiting APC/C-Cdh1-mediated poly-ubiquitination and subsequent proteasome-mediated degradation of the pro-apoptotic protein MOAP1.

Enzyme Numbers (IUBMB) for TRIM39 Gene

Gene Ontology (GO) - Molecular Function for TRIM39 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016874 ligase activity IEA --
genes like me logo Genes that share ontologies with TRIM39: view
genes like me logo Genes that share phenotypes with TRIM39: view

Animal Model Products

CRISPR Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for TRIM39 Gene

Localization for TRIM39 Gene

Subcellular locations from UniProtKB/Swiss-Prot for TRIM39 Gene

Cytoplasm, cytosol. Mitochondrion. Note=Found predominantly in the cytosol. Partial shift from the cytosol to the mitochondria when colocalized with MOAP1.

Gene Ontology (GO) - Cellular Components for TRIM39 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005622 intracellular IEA --
genes like me logo Genes that share ontologies with TRIM39: view

No data available for Subcellular locations from COMPARTMENTS for TRIM39 Gene

Pathways & Interactions for TRIM39 Gene

genes like me logo Genes that share pathways with TRIM39: view

UniProtKB/Swiss-Prot Q9HCM9-TRI39_HUMAN

  • Pathway: Protein modification; protein ubiquitination.

Gene Ontology (GO) - Biological Process for TRIM39 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006915 apoptotic process IEA --
genes like me logo Genes that share ontologies with TRIM39: view

No data available for SIGNOR curated interactions for TRIM39 Gene

Drugs & Compounds for TRIM39 Gene

No Compound Related Data Available

Transcripts for TRIM39 Gene

mRNA/cDNA for TRIM39 Gene

(2) REFSEQ mRNAs :
(5) Additional mRNA sequences :
(7) Selected AceView cDNA sequences:
(11) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for TRIM39 Gene

Tripartite motif containing 39:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for TRIM39 Gene

No ASD Table

Relevant External Links for TRIM39 Gene

GeneLoc Exon Structure for
TRIM39
ECgene alternative splicing isoforms for
TRIM39

Expression for TRIM39 Gene

mRNA expression in normal human tissues for TRIM39 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for TRIM39 Gene

This gene is overexpressed in Heart (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for TRIM39 Gene



SOURCE GeneReport for Unigene cluster for TRIM39 Gene Hs.413493

mRNA Expression by UniProt/SwissProt for TRIM39 Gene

Q9HCM9-TRI39_HUMAN
Tissue specificity: Ubiquitous; highly expressed in brain, heart, kidney, liver, skeletal muscle, spleen and testis.
genes like me logo Genes that share expression patterns with TRIM39: view

Protein tissue co-expression partners for TRIM39 Gene

- Elite partner

Primer Products

In Situ Assay Products

No data available for mRNA differential expression in normal tissues for TRIM39 Gene

Orthologs for TRIM39 Gene

This gene was present in the common ancestor of chordates.

Orthologs for TRIM39 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TRIM39 36
  • 100 (a)
OneToOne
TRIM39 35
  • 99.86 (n)
  • 100 (a)
cow
(Bos Taurus)
Mammalia TRIM39 35
  • 94.06 (n)
  • 99.39 (a)
dog
(Canis familiaris)
Mammalia TRIM39 35
  • 94.33 (n)
  • 99.39 (a)
TRIM39 36
  • 99 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Trim39 16
Trim39 36
  • 98 (a)
OneToOne
Trim39 35
  • 90.44 (n)
  • 97.54 (a)
oppossum
(Monodelphis domestica)
Mammalia -- 36
  • 90 (a)
OneToMany
rat
(Rattus norvegicus)
Mammalia Trim39 35
  • 89.48 (n)
  • 97.54 (a)
chicken
(Gallus gallus)
Aves TRIM39 35
  • 52.94 (n)
  • 42.07 (a)
TRIM27.1 36
  • 36 (a)
ManyToMany
lizard
(Anolis carolinensis)
Reptilia -- 36
  • 69 (a)
OneToMany
zebrafish
(Danio rerio)
Actinopterygii LOC101883816 35
  • 49.49 (n)
  • 38.24 (a)
Species with no ortholog for TRIM39:
  • 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)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for TRIM39 Gene

ENSEMBL:
Gene Tree for TRIM39 (if available)
TreeFam:
Gene Tree for TRIM39 (if available)

Paralogs for TRIM39 Gene

Pseudogenes.org Pseudogenes for TRIM39 Gene

genes like me logo Genes that share paralogs with TRIM39: view

Variants for TRIM39 Gene

Structural Variations from Database of Genomic Variants (DGV) for TRIM39 Gene

Variant ID Type Subtype PubMed ID
nsv5241 CNV Insertion 18451855

Variation tolerance for TRIM39 Gene

Residual Variation Intolerance Score: 16.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.25; 40.44% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for TRIM39 Gene

HapMap Linkage Disequilibrium report
TRIM39

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Sequence variations from dbSNP and Humsavar for TRIM39 Gene

Disorders for TRIM39 Gene

Relevant External Links for TRIM39

Genetic Association Database (GAD)
TRIM39
Human Genome Epidemiology (HuGE) Navigator
TRIM39
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
TRIM39

No disorders were found for TRIM39 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TRIM39 Gene

Publications for TRIM39 Gene

  1. Molecular cloning of testis-abundant finger protein/ring finger protein 23 (RNF23), a novel RING-B box-coiled coil-B30.2 protein on the class I region of the human MHC. (PMID: 11006080) Orimo A. … Muramatsu M. (Biochem. Biophys. Res. Commun. 2000) 2 3 4 23 67
  2. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3
  3. A proteome-scale map of the human interactome network. (PMID: 25416956) Rolland T. … Vidal M. (Cell 2014) 3
  4. A Y2H-seq approach defines the human protein methyltransferase interactome. (PMID: 23455924) Weimann M. … Stelzl U. (Nat. Methods 2013) 3
  5. TRIM39R, but not TRIM39B, regulates type I interferon response. (PMID: 23707810) Kurata R. … Inoko H. (Biochem. Biophys. Res. Commun. 2013) 3

Products for TRIM39 Gene

Sources for TRIM39 Gene

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