Atlas of Genetics and Cytogenetics in Oncology and Haematology


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LRRTM4 (leucine rich repeat transmembrane neuronal 4)

Identity

Alias_symbol (synonym)FLJ12568
Other alias-
HGNC (Hugo) LRRTM4
LocusID (NCBI) 80059
Atlas_Id 68674
Location 2p12  [Link to chromosome band 2p12]
Location_base_pair Starts at 76747724 and ends at 77522433 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
LRRTM4 (2p12) / TRAF3IP3 (1q32.2)OXNAD1 (3p25.1) / LRRTM4 (2p12)

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)LRRTM4   19411
Cards
Entrez_Gene (NCBI)LRRTM4  80059  leucine rich repeat transmembrane neuronal 4
Aliases
GeneCards (Weizmann)LRRTM4
Ensembl hg19 (Hinxton)ENSG00000176204 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000176204 [Gene_View]  chr2:76747724-77522433 [Contig_View]  LRRTM4 [Vega]
ICGC DataPortalENSG00000176204
TCGA cBioPortalLRRTM4
AceView (NCBI)LRRTM4
Genatlas (Paris)LRRTM4
WikiGenes80059
SOURCE (Princeton)LRRTM4
Genetics Home Reference (NIH)LRRTM4
Genomic and cartography
GoldenPath hg38 (UCSC)LRRTM4  -     chr2:76747724-77522433 -  2p12   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LRRTM4  -     2p12   [Description]    (hg19-Feb_2009)
EnsemblLRRTM4 - 2p12 [CytoView hg19]  LRRTM4 - 2p12 [CytoView hg38]
Mapping of homologs : NCBILRRTM4 [Mapview hg19]  LRRTM4 [Mapview hg38]
OMIM610870   
Gene and transcription
Genbank (Entrez)AI079273 AK022630 AK122612 AK126961 AY182030
RefSeq transcript (Entrez)NM_001134745 NM_001282924 NM_001282928 NM_001330370 NM_024993
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)LRRTM4
Cluster EST : UnigeneHs.285782 [ NCBI ]
CGAP (NCI)Hs.285782
Alternative Splicing GalleryENSG00000176204
Gene ExpressionLRRTM4 [ NCBI-GEO ]   LRRTM4 [ EBI - ARRAY_EXPRESS ]   LRRTM4 [ SEEK ]   LRRTM4 [ MEM ]
Gene Expression Viewer (FireBrowse)LRRTM4 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)80059
GTEX Portal (Tissue expression)LRRTM4
Human Protein AtlasENSG00000176204-LRRTM4 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ86VH4   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ86VH4  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ86VH4
Splice isoforms : SwissVarQ86VH4
PhosPhoSitePlusQ86VH4
Domaine pattern : Prosite (Expaxy)LRR (PS51450)   
Domains : Interpro (EBI)L_dom-like    Leu-rich_rpt    Leu-rich_rpt_typical-subtyp   
Domain families : Pfam (Sanger)LRR_8 (PF13855)   
Domain families : Pfam (NCBI)pfam13855   
Domain families : Smart (EMBL)LRR_TYP (SM00369)  
Conserved Domain (NCBI)LRRTM4
DMDM Disease mutations80059
Blocks (Seattle)LRRTM4
SuperfamilyQ86VH4
Human Protein Atlas [tissue]ENSG00000176204-LRRTM4 [tissue]
Peptide AtlasQ86VH4
HPRD11288
IPIIPI00465323   IPI00884323   IPI00916429   IPI00916683   IPI00916559   
Protein Interaction databases
DIP (DOE-UCLA)Q86VH4
IntAct (EBI)Q86VH4
FunCoupENSG00000176204
BioGRIDLRRTM4
STRING (EMBL)LRRTM4
ZODIACLRRTM4
Ontologies - Pathways
QuickGOQ86VH4
Ontology : AmiGOprotein kinase inhibitor activity  cytoplasm  negative regulation of protein kinase activity  integral component of membrane  cytokine-mediated signaling pathway  cell junction  postsynaptic membrane  negative regulation of JAK-STAT cascade  
Ontology : EGO-EBIprotein kinase inhibitor activity  cytoplasm  negative regulation of protein kinase activity  integral component of membrane  cytokine-mediated signaling pathway  cell junction  postsynaptic membrane  negative regulation of JAK-STAT cascade  
NDEx NetworkLRRTM4
Atlas of Cancer Signalling NetworkLRRTM4
Wikipedia pathwaysLRRTM4
Orthology - Evolution
OrthoDB80059
GeneTree (enSembl)ENSG00000176204
Phylogenetic Trees/Animal Genes : TreeFamLRRTM4
HOVERGENQ86VH4
HOGENOMQ86VH4
Homologs : HomoloGeneLRRTM4
Homology/Alignments : Family Browser (UCSC)LRRTM4
Gene fusions - Rearrangements
Fusion: Tumor Portal LRRTM4
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLRRTM4 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LRRTM4
dbVarLRRTM4
ClinVarLRRTM4
1000_GenomesLRRTM4 
Exome Variant ServerLRRTM4
ExAC (Exome Aggregation Consortium)ENSG00000176204
GNOMAD BrowserENSG00000176204
Genetic variants : HAPMAP80059
Genomic Variants (DGV)LRRTM4 [DGVbeta]
DECIPHERLRRTM4 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLRRTM4 
Mutations
ICGC Data PortalLRRTM4 
TCGA Data PortalLRRTM4 
Broad Tumor PortalLRRTM4
OASIS PortalLRRTM4 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLRRTM4  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDLRRTM4
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 LRRTM4
DgiDB (Drug Gene Interaction Database)LRRTM4
DoCM (Curated mutations)LRRTM4 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LRRTM4 (select a term)
intoGenLRRTM4
Cancer3DLRRTM4(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM610870   
Orphanet
MedgenLRRTM4
Genetic Testing Registry LRRTM4
NextProtQ86VH4 [Medical]
TSGene80059
GENETestsLRRTM4
Target ValidationLRRTM4
Huge Navigator LRRTM4 [HugePedia]
snp3D : Map Gene to Disease80059
BioCentury BCIQLRRTM4
ClinGenLRRTM4
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD80059
Chemical/Pharm GKB GenePA134972631
Clinical trialLRRTM4
Miscellaneous
canSAR (ICR)LRRTM4 (select the gene name)
Probes
Litterature
PubMed10 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLRRTM4
EVEXLRRTM4
GoPubMedLRRTM4
iHOPLRRTM4
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Thu Nov 9 12:11:49 CET 2017

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