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Aliases for TRIM42 Gene

Aliases for TRIM42 Gene

  • Tripartite Motif Containing 42 2 3
  • Tripartite Motif-Containing 42 2 3
  • Protein Phosphatase 1, Regulatory Subunit 40 3
  • Tripartite Motif-Containing Protein 42 3
  • Protein Phosphatase 1 2
  • Regulatory Subunit 40 2
  • PPP1R40 3
  • T4A1 3

External Ids for TRIM42 Gene

Previous GeneCards Identifiers for TRIM42 Gene

  • GC03M141225
  • GC03P141678
  • GC03P141717
  • GC03P141879
  • GC03P140396
  • GC03P137770

Summaries for TRIM42 Gene

Entrez Gene Summary for TRIM42 Gene

  • This gene encodes a member of the tripartite motif (TRIM) family. The TRIM motif includes three zinc-binding domains, namely a RING, a B-box type 1 and a B-box type 2, and a coiled-coil region. [provided by RefSeq, Jul 2008]

GeneCards Summary for TRIM42 Gene

TRIM42 (Tripartite Motif Containing 42) is a Protein Coding gene.

No data available for UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TRIM42 Gene

Genomics for TRIM42 Gene

Regulatory Elements for TRIM42 Gene

Genomic Location for TRIM42 Gene

Start:
140,678,024 bp from pter
End:
140,701,150 bp from pter
Size:
23,127 bases
Orientation:
Plus strand

Genomic View for TRIM42 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for TRIM42 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TRIM42 Gene

Proteins for TRIM42 Gene

  • Protein details for TRIM42 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8IWZ5-TRI42_HUMAN
    Recommended name:
    Tripartite motif-containing protein 42
    Protein Accession:
    Q8IWZ5
    Secondary Accessions:
    • A1L4B4
    • Q8N832
    • Q8NDL3

    Protein attributes for TRIM42 Gene

    Size:
    723 amino acids
    Molecular mass:
    82745 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAC05042.1; Type=Erroneous termination; Positions=709; Note=Translated as Trp.; Evidence={ECO:0000305};

    Alternative splice isoforms for TRIM42 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TRIM42 Gene

Proteomics data for TRIM42 Gene at MOPED

Post-translational modifications for TRIM42 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for TRIM42 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for TRIM42 Gene

Domains for TRIM42 Gene

Gene Families for TRIM42 Gene

HGNC:
  • FN3 :Fibronectin type III domain containing
  • PPP1R :Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits
  • RNF :RING-type (C3HC4) zinc fingers
  • TRIM :Tripartite motif containing / Tripartite motif containing

Protein Domains for TRIM42 Gene

Suggested Antigen Peptide Sequences for TRIM42 Gene

Graphical View of Domain Structure for InterPro Entry

Q8IWZ5

UniProtKB/Swiss-Prot:

TRI42_HUMAN :
  • Q8IWZ5
Domain:
  • Contains 1 COS domain.
  • Contains 1 fibronectin type-III domain.
Family:
  • Belongs to the TRIM/RBCC family.
Similarity:
  • Contains 2 B box-type zinc fingers.
  • Contains 1 RING-type zinc finger.
genes like me logo Genes that share domains with TRIM42: view

Function for TRIM42 Gene

Gene Ontology (GO) - Molecular Function for TRIM42 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 25416956
GO:0008270 zinc ion binding IEA --
genes like me logo Genes that share ontologies with TRIM42: view

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes , Animal Models , miRNA , Transcription Factor Targeting and HOMER Transcription for TRIM42 Gene

Localization for TRIM42 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for TRIM42 Gene COMPARTMENTS Subcellular localization image for TRIM42 gene
Compartment Confidence
nucleus 3
cytosol 2
mitochondrion 1

Gene Ontology (GO) - Cellular Components for TRIM42 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005622 intracellular IEA --
genes like me logo Genes that share ontologies with TRIM42: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for TRIM42 Gene

Pathways for TRIM42 Gene

SuperPathways for TRIM42 Gene

No Data Available

Gene Ontology (GO) - Biological Process for TRIM42 Gene

None

No data available for Pathways by source for TRIM42 Gene

Transcripts for TRIM42 Gene

mRNA/cDNA for TRIM42 Gene

(11) Selected AceView cDNA sequences:
(6) Additional mRNA sequences :
(3) REFSEQ mRNAs :
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for TRIM42 Gene

Tripartite motif containing 42:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for TRIM42 Gene

No ASD Table

Relevant External Links for TRIM42 Gene

GeneLoc Exon Structure for
TRIM42
ECgene alternative splicing isoforms for
TRIM42

Expression for TRIM42 Gene

mRNA expression in normal human tissues for TRIM42 Gene

mRNA differential expression in normal tissues according to GTEx for TRIM42 Gene

This gene is overexpressed in Testis (51.7).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for TRIM42 Gene

SOURCE GeneReport for Unigene cluster for TRIM42 Gene Hs.343487

genes like me logo Genes that share expressions with TRIM42: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA Expression by UniProt/SwissProt for TRIM42 Gene

Orthologs for TRIM42 Gene

This gene was present in the common ancestor of chordates.

Orthologs for TRIM42 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TRIM42 35
  • 99.26 (n)
  • 98.62 (a)
TRIM42 36
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia TRIM42 35
  • 88.93 (n)
  • 88.93 (a)
TRIM42 36
  • 89 (a)
OneToOne
dog
(Canis familiaris)
Mammalia TRIM42 35
  • 89.53 (n)
  • 90.46 (a)
TRIM42 36
  • 90 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Trim42 35
  • 85.62 (n)
  • 87 (a)
Trim42 16
Trim42 36
  • 87 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia TRIM42 36
  • 54 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 54 (a)
OneToMany
-- 36
  • 58 (a)
OneToMany
rat
(Rattus norvegicus)
Mammalia Trim42 35
  • 85.71 (n)
  • 87.41 (a)
chicken
(Gallus gallus)
Aves TRIM42 35
  • 55.9 (n)
  • 46.72 (a)
TRIM42 36
  • 43 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia TRIM42 36
  • 47 (a)
OneToOne
Species with no ortholog for TRIM42:
  • 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 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)
  • zebrafish (Danio rerio)

Evolution for TRIM42 Gene

ENSEMBL:
Gene Tree for TRIM42 (if available)
TreeFam:
Gene Tree for TRIM42 (if available)

Paralogs for TRIM42 Gene

No data available for Paralogs for TRIM42 Gene

Variants for TRIM42 Gene

Sequence variations from dbSNP and Humsavar for TRIM42 Gene

SNP ID Clin Chr 03 pos Sequence Context AA Info Type MAF
rs698666 -- 140,680,235(-) GCCGA(A/C)CTCCT intron-variant, upstream-variant-2KB
rs698667 -- 140,680,890(-) TTCCC(C/T)GCTCC intron-variant
rs698668 -- 140,681,327(-) aagca(A/T)tcaat intron-variant
rs698669 -- 140,681,368(-) aaaag(A/G)taatc intron-variant
rs698670 -- 140,681,991(-) acaag(A/G)ccact intron-variant

Structural Variations from Database of Genomic Variants (DGV) for TRIM42 Gene

Variant ID Type Subtype PubMed ID
dgv1513e1 CNV Complex 17122850
nsv527831 CNV Gain 19592680
esv34489 CNV Gain 17911159
nsv877546 CNV Gain 21882294
nsv460869 CNV Gain 19166990
nsv818170 CNV Gain 17921354
nsv877547 CNV Gain 21882294
nsv829743 CNV Loss 17160897

Relevant External Links for TRIM42 Gene

HapMap Linkage Disequilibrium report
TRIM42

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TRIM42 Gene

Disorders for TRIM42 Gene

Relevant External Links for TRIM42

Genetic Association Database (GAD)
TRIM42
Human Genome Epidemiology (HuGE) Navigator
TRIM42
genes like me logo Genes that share disorders with TRIM42: view

No data available for UniProtKB/Swiss-Prot for TRIM42 Gene

Publications for TRIM42 Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4
  2. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose J.E. … Uhl G.R. (Mol. Med. 2010) 3 48
  3. Genome-wide association analysis of susceptibility and clinical phenotype in multiple sclerosis. (PMID: 19010793) Baranzini S.E. … Oksenberg J.R. (Hum. Mol. Genet. 2009) 3 48
  4. Docking motif-guided mapping of the interactome of protein phosphatase-1. (PMID: 19389623) Hendrickx A. … Bollen M. (Chem. Biol. 2009) 3
  5. Genome-wide association study of bipolar disorder accounting for effect of body mass index identifies a new risk allele in TCF7L2. (PMID: 24322204) Winham S.J. … Biernacka J.M. (Mol. Psychiatry 2013) 3

Products for TRIM42 Gene

Sources for TRIM42 Gene

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