Atlas of Genetics and Cytogenetics in Oncology and Haematology


Home   Genes   Leukemias   Solid Tumours   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

X Y 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 NA

TRIM5 (tripartite motif containing 5)

Identity

Alias_namestripartite motif-containing 5
Alias_symbol (synonym)RNF88
TRIM5alpha
Other alias
HGNC (Hugo) TRIM5
LocusID (NCBI) 85363
Atlas_Id 43965
Location 11p15.4  [Link to chromosome band 11p15]
Location_base_pair Starts at 5684425 and ends at 5706339 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
LAMC1 (1q25.3) / TRIM5 (11p15.4)MARVELD2 (5q13.2) / TRIM5 (11p15.4)SCRG1 (4q34.1) / TRIM5 (11p15.4)
TRIM5 (11p15.4) / CDC27 (17q21.32)TRIM5 (11p15.4) / MFAP1 (15q15.3)TRIM5 (11p15.4) / YY1AP1 (1q22)

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 


External links

Nomenclature
HGNC (Hugo)TRIM5   16276
Cards
Entrez_Gene (NCBI)TRIM5  85363  tripartite motif containing 5
AliasesRNF88; TRIM5alpha
GeneCards (Weizmann)TRIM5
Ensembl hg19 (Hinxton)ENSG00000132256 [Gene_View]  chr11:5684425-5706339 [Contig_View]  TRIM5 [Vega]
Ensembl hg38 (Hinxton)ENSG00000132256 [Gene_View]  chr11:5684425-5706339 [Contig_View]  TRIM5 [Vega]
ICGC DataPortalENSG00000132256
TCGA cBioPortalTRIM5
AceView (NCBI)TRIM5
Genatlas (Paris)TRIM5
WikiGenes85363
SOURCE (Princeton)TRIM5
Genetics Home Reference (NIH)TRIM5
Genomic and cartography
GoldenPath hg19 (UCSC)TRIM5  -     chr11:5684425-5706339 -  11p15.4   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)TRIM5  -     11p15.4   [Description]    (hg38-Dec_2013)
EnsemblTRIM5 - 11p15.4 [CytoView hg19]  TRIM5 - 11p15.4 [CytoView hg38]
Mapping of homologs : NCBITRIM5 [Mapview hg19]  TRIM5 [Mapview hg38]
OMIM608487   
Gene and transcription
Genbank (Entrez)AB362928 AF220025 AF220026 AF220027 AF220028
RefSeq transcript (Entrez)NM_033034 NM_033092 NM_033093
RefSeq genomic (Entrez)NC_000011 NC_018922 NG_029122 NT_009237 NW_004929378
Consensus coding sequences : CCDS (NCBI)TRIM5
Cluster EST : UnigeneHs.125300 [ NCBI ]
CGAP (NCI)Hs.125300
Alternative Splicing GalleryENSG00000132256
Gene ExpressionTRIM5 [ NCBI-GEO ]   TRIM5 [ EBI - ARRAY_EXPRESS ]   TRIM5 [ SEEK ]   TRIM5 [ MEM ]
Gene Expression Viewer (FireBrowse)TRIM5 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)85363
GTEX Portal (Tissue expression)TRIM5
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9C035   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9C035  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9C035
Splice isoforms : SwissVarQ9C035
Catalytic activity : Enzyme6.3.2.- [ Enzyme-Expasy ]   6.3.2.-6.3.2.- [ IntEnz-EBI ]   6.3.2.- [ BRENDA ]   6.3.2.- [ KEGG ]   
PhosPhoSitePlusQ9C035
Domaine pattern : Prosite (Expaxy)B302_SPRY (PS50188)    ZF_BBOX (PS50119)    ZF_RING_1 (PS00518)    ZF_RING_2 (PS50089)   
Domains : Interpro (EBI)B30.2/SPRY    Butyrophylin    ConA-like_dom    SPRY_dom    TRIM5    Znf_B-box    Znf_RING    Znf_RING/FYVE/PHD    Znf_RING_CS   
Domain families : Pfam (Sanger)SPRY (PF00622)    zf-B_box (PF00643)   
Domain families : Pfam (NCBI)pfam00622    pfam00643   
Domain families : Smart (EMBL)BBOX (SM00336)  RING (SM00184)  
Conserved Domain (NCBI)TRIM5
DMDM Disease mutations85363
Blocks (Seattle)TRIM5
PDB (SRS)2ECV    2YRG   
PDB (PDBSum)2ECV    2YRG   
PDB (IMB)2ECV    2YRG   
PDB (RSDB)2ECV    2YRG   
Structural Biology KnowledgeBase2ECV    2YRG   
SCOP (Structural Classification of Proteins)2ECV    2YRG   
CATH (Classification of proteins structures)2ECV    2YRG   
SuperfamilyQ9C035
Human Protein AtlasENSG00000132256
Peptide AtlasQ9C035
HPRD07004
IPIIPI00873422   IPI00394972   IPI00394973   IPI00394974   IPI00394975   IPI00394971   IPI01012489   IPI00658075   IPI00749246   IPI00879744   
Protein Interaction databases
DIP (DOE-UCLA)Q9C035
IntAct (EBI)Q9C035
FunCoupENSG00000132256
BioGRIDTRIM5
STRING (EMBL)TRIM5
ZODIACTRIM5
Ontologies - Pathways
QuickGOQ9C035
Ontology : AmiGOcytoplasmic mRNA processing body  activation of innate immune response  pattern recognition receptor signaling pathway  ubiquitin-protein transferase activity  protein binding  nucleus  cytoplasm  cytosol  autophagy  zinc ion binding  signaling pattern recognition receptor activity  viral process  ligase activity  protein kinase binding  protein binding, bridging  regulation of lipopolysaccharide-mediated signaling pathway  regulation of protein localization  identical protein binding  protein homodimerization activity  positive regulation of I-kappaB kinase/NF-kappaB signaling  positive regulation of I-kappaB kinase/NF-kappaB signaling  positive regulation of MAPK cascade  innate immune response  negative regulation of viral entry into host cell  positive regulation of sequence-specific DNA binding transcription factor activity  positive regulation of NF-kappaB transcription factor activity  defense response to virus  interferon-gamma-mediated signaling pathway  protein trimerization  protein K63-linked ubiquitination  negative regulation of viral release from host cell  omegasome  
Ontology : EGO-EBIcytoplasmic mRNA processing body  activation of innate immune response  pattern recognition receptor signaling pathway  ubiquitin-protein transferase activity  protein binding  nucleus  cytoplasm  cytosol  autophagy  zinc ion binding  signaling pattern recognition receptor activity  viral process  ligase activity  protein kinase binding  protein binding, bridging  regulation of lipopolysaccharide-mediated signaling pathway  regulation of protein localization  identical protein binding  protein homodimerization activity  positive regulation of I-kappaB kinase/NF-kappaB signaling  positive regulation of I-kappaB kinase/NF-kappaB signaling  positive regulation of MAPK cascade  innate immune response  negative regulation of viral entry into host cell  positive regulation of sequence-specific DNA binding transcription factor activity  positive regulation of NF-kappaB transcription factor activity  defense response to virus  interferon-gamma-mediated signaling pathway  protein trimerization  protein K63-linked ubiquitination  negative regulation of viral release from host cell  omegasome  
NDEx NetworkTRIM5
Atlas of Cancer Signalling NetworkTRIM5
Wikipedia pathwaysTRIM5
Orthology - Evolution
OrthoDB85363
GeneTree (enSembl)ENSG00000132256
Phylogenetic Trees/Animal Genes : TreeFamTRIM5
HOVERGENQ9C035
HOGENOMQ9C035
Homologs : HomoloGeneTRIM5
Homology/Alignments : Family Browser (UCSC)TRIM5
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerTRIM5 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)TRIM5
dbVarTRIM5
ClinVarTRIM5
1000_GenomesTRIM5 
Exome Variant ServerTRIM5
ExAC (Exome Aggregation Consortium)TRIM5 (select the gene name)
Genetic variants : HAPMAP85363
Genomic Variants (DGV)TRIM5 [DGVbeta]
DECIPHER (Syndromes)11:5684425-5706339  ENSG00000132256
CONAN: Copy Number AnalysisTRIM5 
Mutations
ICGC Data PortalTRIM5 
TCGA Data PortalTRIM5 
Broad Tumor PortalTRIM5
OASIS PortalTRIM5 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICTRIM5  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDTRIM5
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch TRIM5
DgiDB (Drug Gene Interaction Database)TRIM5
DoCM (Curated mutations)TRIM5 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)TRIM5 (select a term)
intoGenTRIM5
Cancer3DTRIM5(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM608487   
Orphanet
MedgenTRIM5
Genetic Testing Registry TRIM5
NextProtQ9C035 [Medical]
TSGene85363
GENETestsTRIM5
Huge Navigator TRIM5 [HugePedia]
snp3D : Map Gene to Disease85363
BioCentury BCIQTRIM5
ClinGenTRIM5
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD85363
Chemical/Pharm GKB GenePA38109
Clinical trialTRIM5
Miscellaneous
canSAR (ICR)TRIM5 (select the gene name)
Probes
Litterature
PubMed193 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineTRIM5
EVEXTRIM5
GoPubMedTRIM5
iHOPTRIM5
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Thu Mar 30 15:23:29 CEST 2017

Home   Genes   Leukemias   Solid Tumours   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.