Atlas of Genetics and Cytogenetics in Oncology and Haematology

Home   Genes   Leukemias   Solid Tumors   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

LTBR (lymphotoxin beta receptor)

Identity

Alias_namesD12S370
Alias_symbol (synonym)TNFCR
TNFR-RP
TNFR2-RP
TNF-R-III
TNFRSF3
Other aliasLT-BETA-R
TNFR3
HGNC (Hugo) LTBR
LocusID (NCBI) 4055
Atlas_Id 41216
Location 12p13.31  [Link to chromosome band 12p13]
Location_base_pair Starts at 6384033 and ends at 6391571 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)
LTBR (12p13.31) / WDTC1 (1p36.11)NSMCE1 (16p12.1) / LTBR (12p13.31)

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)LTBR   6718
Cards
Entrez_Gene (NCBI)LTBR  4055  lymphotoxin beta receptor
AliasesD12S370; LT-BETA-R; TNF-R-III; TNFCR; 
TNFR-RP; TNFR2-RP; TNFR3; TNFRSF3
GeneCards (Weizmann)LTBR
Ensembl hg19 (Hinxton)ENSG00000111321 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000111321 [Gene_View]  ENSG00000111321 [Sequence]  chr12:6384033-6391571 [Contig_View]  LTBR [Vega]
ICGC DataPortalENSG00000111321
TCGA cBioPortalLTBR
AceView (NCBI)LTBR
Genatlas (Paris)LTBR
WikiGenes4055
SOURCE (Princeton)LTBR
Genetics Home Reference (NIH)LTBR
Genomic and cartography
GoldenPath hg38 (UCSC)LTBR  -     chr12:6384033-6391571 +  12p13.31   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LTBR  -     12p13.31   [Description]    (hg19-Feb_2009)
GoldenPathLTBR - 12p13.31 [CytoView hg19]  LTBR - 12p13.31 [CytoView hg38]
ImmunoBaseENSG00000111321
Mapping of homologs : NCBILTBR [Mapview hg19]  LTBR [Mapview hg38]
OMIM600979   
Gene and transcription
Genbank (Entrez)AK027080 AK095418 AK128019 AK293187 BC026262
RefSeq transcript (Entrez)NM_001270987 NM_002342
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)LTBR
Cluster EST : UnigeneHs.1116 [ NCBI ]
CGAP (NCI)Hs.1116
Alternative Splicing GalleryENSG00000111321
Gene ExpressionLTBR [ NCBI-GEO ]   LTBR [ EBI - ARRAY_EXPRESS ]   LTBR [ SEEK ]   LTBR [ MEM ]
Gene Expression Viewer (FireBrowse)LTBR [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)4055
GTEX Portal (Tissue expression)LTBR
Human Protein AtlasENSG00000111321-LTBR [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP36941   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP36941  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP36941
Splice isoforms : SwissVarP36941
PhosPhoSitePlusP36941
Domaine pattern : Prosite (Expaxy)TNFR_NGFR_1 (PS00652)    TNFR_NGFR_2 (PS50050)   
Domains : Interpro (EBI)TNFR/NGFR_Cys_rich_reg    TNFR_3_LTBR    TNFRSF3_N   
Domain families : Pfam (Sanger)TNFR_c6 (PF00020)   
Domain families : Pfam (NCBI)pfam00020   
Domain families : Smart (EMBL)TNFR (SM00208)  
Conserved Domain (NCBI)LTBR
DMDM Disease mutations4055
Blocks (Seattle)LTBR
PDB (RSDB)1RF3    4MXW   
PDB Europe1RF3    4MXW   
PDB (PDBSum)1RF3    4MXW   
PDB (IMB)1RF3    4MXW   
Structural Biology KnowledgeBase1RF3    4MXW   
SCOP (Structural Classification of Proteins)1RF3    4MXW   
CATH (Classification of proteins structures)1RF3    4MXW   
SuperfamilyP36941
Human Protein Atlas [tissue]ENSG00000111321-LTBR [tissue]
Peptide AtlasP36941
HPRD02988
IPIIPI00006097   IPI01014882   IPI00977977   IPI01015852   IPI01014968   IPI00789031   IPI01014258   IPI01013824   
Protein Interaction databases
DIP (DOE-UCLA)P36941
IntAct (EBI)P36941
FunCoupENSG00000111321
BioGRIDLTBR
STRING (EMBL)LTBR
ZODIACLTBR
Ontologies - Pathways
QuickGOP36941
Ontology : AmiGOprotein binding  Golgi apparatus  plasma membrane  apoptotic process  immune response  signal transduction  integral component of membrane  viral process  ubiquitin protein ligase binding  ubiquitin protein ligase binding  tumor necrosis factor-mediated signaling pathway  identical protein binding  myeloid dendritic cell differentiation  positive regulation of I-kappaB kinase/NF-kappaB signaling  positive regulation of I-kappaB kinase/NF-kappaB signaling  positive regulation of JNK cascade  cellular response to mechanical stimulus  positive regulation of extrinsic apoptotic signaling pathway  
Ontology : EGO-EBIprotein binding  Golgi apparatus  plasma membrane  apoptotic process  immune response  signal transduction  integral component of membrane  viral process  ubiquitin protein ligase binding  ubiquitin protein ligase binding  tumor necrosis factor-mediated signaling pathway  identical protein binding  myeloid dendritic cell differentiation  positive regulation of I-kappaB kinase/NF-kappaB signaling  positive regulation of I-kappaB kinase/NF-kappaB signaling  positive regulation of JNK cascade  cellular response to mechanical stimulus  positive regulation of extrinsic apoptotic signaling pathway  
Pathways : KEGGCytokine-cytokine receptor interaction    NF-kappa B signaling pathway    HIF-1 signaling pathway    Intestinal immune network for IgA production    HTLV-I infection    Viral carcinogenesis   
NDEx NetworkLTBR
Atlas of Cancer Signalling NetworkLTBR
Wikipedia pathwaysLTBR
Orthology - Evolution
OrthoDB4055
GeneTree (enSembl)ENSG00000111321
Phylogenetic Trees/Animal Genes : TreeFamLTBR
HOGENOMP36941
Homologs : HomoloGeneLTBR
Homology/Alignments : Family Browser (UCSC)LTBR
Gene fusions - Rearrangements
Fusion : QuiverLTBR
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLTBR [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LTBR
dbVarLTBR
ClinVarLTBR
1000_GenomesLTBR 
Exome Variant ServerLTBR
ExAC (Exome Aggregation Consortium)ENSG00000111321
GNOMAD BrowserENSG00000111321
Varsome BrowserLTBR
Genetic variants : HAPMAP4055
Genomic Variants (DGV)LTBR [DGVbeta]
DECIPHERLTBR [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLTBR 
Mutations
ICGC Data PortalLTBR 
TCGA Data PortalLTBR 
Broad Tumor PortalLTBR
OASIS PortalLTBR [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLTBR  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DLTBR
Mutations and Diseases : HGMDLTBR
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 LTBR
DgiDB (Drug Gene Interaction Database)LTBR
DoCM (Curated mutations)LTBR (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LTBR (select a term)
intoGenLTBR
Cancer3DLTBR(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM600979   
Orphanet
DisGeNETLTBR
MedgenLTBR
Genetic Testing Registry LTBR
NextProtP36941 [Medical]
TSGene4055
GENETestsLTBR
Target ValidationLTBR
Huge Navigator LTBR [HugePedia]
snp3D : Map Gene to Disease4055
BioCentury BCIQLTBR
ClinGenLTBR
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD4055
Chemical/Pharm GKB GenePA30481
Clinical trialLTBR
Miscellaneous
canSAR (ICR)LTBR (select the gene name)
DataMed IndexLTBR
Probes
Litterature
PubMed99 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLTBR
EVEXLTBR
GoPubMedLTBR
iHOPLTBR
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 : Wed Nov 13 17:52:01 CET 2019
Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.