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TRIM56 (tripartite motif containing 56)

Identity

Alias_namestripartite motif-containing 56
Alias_symbol (synonym)RNF109
Other alias
HGNC (Hugo) TRIM56
LocusID (NCBI) 81844
Atlas_Id 75171
Location 7q22.1  [Link to chromosome band 7q22]
Location_base_pair Starts at 100728720 and ends at 100735019 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
TRIM56 (7q22.1) / MAVS (20p13)TRIM56 (7q22.1) / SNRNP70 (19q13.33)

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)TRIM56   19028
Cards
Entrez_Gene (NCBI)TRIM56  81844  tripartite motif containing 56
AliasesRNF109
GeneCards (Weizmann)TRIM56
Ensembl hg19 (Hinxton) [Gene_View]  chr7:100728720-100735019 [Contig_View]  TRIM56 [Vega]
Ensembl hg38 (Hinxton) [Gene_View]  chr7:100728720-100735019 [Contig_View]  TRIM56 [Vega]
TCGA cBioPortalTRIM56
AceView (NCBI)TRIM56
Genatlas (Paris)TRIM56
WikiGenes81844
SOURCE (Princeton)TRIM56
Genetics Home Reference (NIH)TRIM56
Genomic and cartography
GoldenPath hg19 (UCSC)TRIM56  -     chr7:100728720-100735019 +  7q22.1   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)TRIM56  -     7q22.1   [Description]    (hg38-Dec_2013)
EnsemblTRIM56 - 7q22.1 [CytoView hg19]  TRIM56 - 7q22.1 [CytoView hg38]
Mapping of homologs : NCBITRIM56 [Mapview hg19]  TRIM56 [Mapview hg38]
Gene and transcription
Genbank (Entrez)AK075255 AL512757 BC005847 BC011882 BC048194
RefSeq transcript (Entrez)NM_030961
RefSeq genomic (Entrez)NC_000007 NC_018918 NT_007933 NW_004929332
Consensus coding sequences : CCDS (NCBI)TRIM56
Cluster EST : UnigeneHs.521092 [ NCBI ]
CGAP (NCI)Hs.521092
Gene ExpressionTRIM56 [ NCBI-GEO ]   TRIM56 [ EBI - ARRAY_EXPRESS ]   TRIM56 [ SEEK ]   TRIM56 [ MEM ]
Gene Expression Viewer (FireBrowse)TRIM56 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)81844
GTEX Portal (Tissue expression)TRIM56
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9BRZ2   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9BRZ2  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9BRZ2
Splice isoforms : SwissVarQ9BRZ2
Catalytic activity : Enzyme6.3.2.- [ Enzyme-Expasy ]   6.3.2.-6.3.2.- [ IntEnz-EBI ]   6.3.2.- [ BRENDA ]   6.3.2.- [ KEGG ]   
PhosPhoSitePlusQ9BRZ2
Domaine pattern : Prosite (Expaxy)ZF_BBOX (PS50119)    ZF_RING_1 (PS00518)    ZF_RING_2 (PS50089)   
Domains : Interpro (EBI)6-blade_b-propeller_TolB-like    Znf_B-box    Znf_C3HC4_RING-type    Znf_RING    Znf_RING/FYVE/PHD    Znf_RING_CS   
Domain families : Pfam (Sanger)zf-B_box (PF00643)    zf-C3HC4 (PF00097)   
Domain families : Pfam (NCBI)pfam00643    pfam00097   
Domain families : Smart (EMBL)BBOX (SM00336)  RING (SM00184)  
Conserved Domain (NCBI)TRIM56
DMDM Disease mutations81844
Blocks (Seattle)TRIM56
SuperfamilyQ9BRZ2
Peptide AtlasQ9BRZ2
HPRD10284
IPIIPI00514832   IPI00872056   IPI00871506   
Protein Interaction databases
DIP (DOE-UCLA)Q9BRZ2
IntAct (EBI)Q9BRZ2
BioGRIDTRIM56
STRING (EMBL)TRIM56
ZODIACTRIM56
Ontologies - Pathways
QuickGOQ9BRZ2
Ontology : AmiGOubiquitin-protein transferase activity  ubiquitin-protein transferase activity  cytoplasm  cytosol  zinc ion binding  ligase activity  regulation of type I interferon production  positive regulation of type I interferon production  interferon-beta production  response to type I interferon  poly(A) RNA binding  innate immune response  negative regulation of viral entry into host cell  defense response to virus  protein K63-linked ubiquitination  negative regulation of viral release from host cell  
Ontology : EGO-EBIubiquitin-protein transferase activity  ubiquitin-protein transferase activity  cytoplasm  cytosol  zinc ion binding  ligase activity  regulation of type I interferon production  positive regulation of type I interferon production  interferon-beta production  response to type I interferon  poly(A) RNA binding  innate immune response  negative regulation of viral entry into host cell  defense response to virus  protein K63-linked ubiquitination  negative regulation of viral release from host cell  
NDEx NetworkTRIM56
Atlas of Cancer Signalling NetworkTRIM56
Wikipedia pathwaysTRIM56
Orthology - Evolution
OrthoDB81844
Phylogenetic Trees/Animal Genes : TreeFamTRIM56
HOVERGENQ9BRZ2
HOGENOMQ9BRZ2
Homologs : HomoloGeneTRIM56
Homology/Alignments : Family Browser (UCSC)TRIM56
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerTRIM56 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)TRIM56
dbVarTRIM56
ClinVarTRIM56
1000_GenomesTRIM56 
Exome Variant ServerTRIM56
ExAC (Exome Aggregation Consortium)TRIM56 (select the gene name)
Genetic variants : HAPMAP81844
Genomic Variants (DGV)TRIM56 [DGVbeta]
DECIPHER (Syndromes)7:100728720-100735019  
CONAN: Copy Number AnalysisTRIM56 
Mutations
ICGC Data PortalTRIM56 
TCGA Data PortalTRIM56 
Broad Tumor PortalTRIM56
OASIS PortalTRIM56 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICTRIM56  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDTRIM56
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 TRIM56
DgiDB (Drug Gene Interaction Database)TRIM56
DoCM (Curated mutations)TRIM56 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)TRIM56 (select a term)
intoGenTRIM56
Cancer3DTRIM56(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
MedgenTRIM56
Genetic Testing Registry TRIM56
NextProtQ9BRZ2 [Medical]
TSGene81844
GENETestsTRIM56
Huge Navigator TRIM56 [HugePedia]
snp3D : Map Gene to Disease81844
BioCentury BCIQTRIM56
ClinGenTRIM56
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD81844
Chemical/Pharm GKB GenePA134958549
Clinical trialTRIM56
Miscellaneous
canSAR (ICR)TRIM56 (select the gene name)
Probes
Litterature
PubMed22 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineTRIM56
EVEXTRIM56
GoPubMedTRIM56
iHOPTRIM56
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Tue Mar 14 12:49:45 CET 2017

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