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LTB (lymphotoxin beta)

Identity

Alias_namesTNFC
Alias_symbol (synonym)p33
TNFSF3
Other aliasTNLG1C
HGNC (Hugo) LTB
LocusID (NCBI) 4050
Atlas_Id 41211
Location 6p21.33  [Link to chromosome band 6p21]
Location_base_pair Starts at 31580559 and ends at 31582425 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)
HMGA1 (6p21.31) / LTB (6p21.33)

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)LTB   6711
Cards
Entrez_Gene (NCBI)LTB  4050  lymphotoxin beta
AliasesTNFC; TNFSF3; TNLG1C; p33
GeneCards (Weizmann)LTB
Ensembl hg19 (Hinxton)ENSG00000227507 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000227507 [Gene_View]  ENSG00000227507 [Sequence]  chr6:31580559-31582425 [Contig_View]  LTB [Vega]
ICGC DataPortalENSG00000227507
TCGA cBioPortalLTB
AceView (NCBI)LTB
Genatlas (Paris)LTB
WikiGenes4050
SOURCE (Princeton)LTB
Genetics Home Reference (NIH)LTB
Genomic and cartography
GoldenPath hg38 (UCSC)LTB  -     chr6:31580559-31582425 -  6p21.33   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LTB  -     6p21.33   [Description]    (hg19-Feb_2009)
EnsemblLTB - 6p21.33 [CytoView hg19]  LTB - 6p21.33 [CytoView hg38]
Mapping of homologs : NCBILTB [Mapview hg19]  LTB [Mapview hg38]
OMIM600978   
Gene and transcription
Genbank (Entrez)AK312210 BC055090 BC055094 BC069330 BC093783
RefSeq transcript (Entrez)NM_002341 NM_009588
RefSeq genomic (Entrez)NC_000006 NT_113891 NT_167244 NT_167245 NT_167246 NT_167247 NT_167248 NT_167249
Consensus coding sequences : CCDS (NCBI)LTB
Cluster EST : UnigeneHs.376208 [ NCBI ]
CGAP (NCI)Hs.376208
Alternative Splicing GalleryENSG00000227507
Gene ExpressionLTB [ NCBI-GEO ]   LTB [ EBI - ARRAY_EXPRESS ]   LTB [ SEEK ]   LTB [ MEM ]
Gene Expression Viewer (FireBrowse)LTB [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)4050
GTEX Portal (Tissue expression)LTB
Human Protein AtlasENSG00000227507-LTB [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ06643   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ06643  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ06643
Splice isoforms : SwissVarQ06643
PhosPhoSitePlusQ06643
Domaine pattern : Prosite (Expaxy)TNF_1 (PS00251)    TNF_2 (PS50049)   
Domains : Interpro (EBI)TNF    TNF_C    TNF_CS    TNF_dom    Tumour_necrosis_fac-like_dom   
Domain families : Pfam (Sanger)TNF (PF00229)   
Domain families : Pfam (NCBI)pfam00229   
Domain families : Smart (EMBL)TNF (SM00207)  
Conserved Domain (NCBI)LTB
DMDM Disease mutations4050
Blocks (Seattle)LTB
PDB (SRS)4MXW   
PDB (PDBSum)4MXW   
PDB (IMB)4MXW   
PDB (RSDB)4MXW   
Structural Biology KnowledgeBase4MXW   
SCOP (Structural Classification of Proteins)4MXW   
CATH (Classification of proteins structures)4MXW   
SuperfamilyQ06643
Human Protein Atlas [tissue]ENSG00000227507-LTB [tissue]
Peptide AtlasQ06643
HPRD02987
IPIIPI00032334   IPI00215776   
Protein Interaction databases
DIP (DOE-UCLA)Q06643
IntAct (EBI)Q06643
FunCoupENSG00000227507
BioGRIDLTB
STRING (EMBL)LTB
ZODIACLTB
Ontologies - Pathways
QuickGOQ06643
Ontology : AmiGOsignaling receptor binding  cytokine activity  tumor necrosis factor receptor binding  cellular_component  extracellular space  plasma membrane  immune response  signal transduction  cell-cell signaling  gene expression  regulation of signaling receptor activity  integral component of membrane  tumor necrosis factor-mediated signaling pathway  skin development  positive regulation of interleukin-12 biosynthetic process  lymph node development  
Ontology : EGO-EBIsignaling receptor binding  cytokine activity  tumor necrosis factor receptor binding  cellular_component  extracellular space  plasma membrane  immune response  signal transduction  cell-cell signaling  gene expression  regulation of signaling receptor activity  integral component of membrane  tumor necrosis factor-mediated signaling pathway  skin development  positive regulation of interleukin-12 biosynthetic process  lymph node development  
Pathways : KEGGCytokine-cytokine receptor interaction    NF-kappa B signaling pathway    Rheumatoid arthritis   
NDEx NetworkLTB
Atlas of Cancer Signalling NetworkLTB
Wikipedia pathwaysLTB
Orthology - Evolution
OrthoDB4050
GeneTree (enSembl)ENSG00000227507
Phylogenetic Trees/Animal Genes : TreeFamLTB
HOVERGENQ06643
HOGENOMQ06643
Homologs : HomoloGeneLTB
Homology/Alignments : Family Browser (UCSC)LTB
Gene fusions - Rearrangements
Fusion : QuiverLTB
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLTB [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LTB
dbVarLTB
ClinVarLTB
1000_GenomesLTB 
Exome Variant ServerLTB
ExAC (Exome Aggregation Consortium)ENSG00000227507
GNOMAD BrowserENSG00000227507
Varsome BrowserLTB
Genetic variants : HAPMAP4050
Genomic Variants (DGV)LTB [DGVbeta]
DECIPHERLTB [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLTB 
Mutations
ICGC Data PortalLTB 
TCGA Data PortalLTB 
Broad Tumor PortalLTB
OASIS PortalLTB [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLTB  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDLTB
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 LTB
DgiDB (Drug Gene Interaction Database)LTB
DoCM (Curated mutations)LTB (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LTB (select a term)
intoGenLTB
Cancer3DLTB(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM600978   
Orphanet
DisGeNETLTB
MedgenLTB
Genetic Testing Registry LTB
NextProtQ06643 [Medical]
TSGene4050
GENETestsLTB
Target ValidationLTB
Huge Navigator LTB [HugePedia]
snp3D : Map Gene to Disease4050
BioCentury BCIQLTB
ClinGenLTB
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD4050
Chemical/Pharm GKB GenePA30475
Clinical trialLTB
Miscellaneous
canSAR (ICR)LTB (select the gene name)
Probes
Litterature
PubMed57 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLTB
EVEXLTB
GoPubMedLTB
iHOPLTB
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

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indexed on : Tue Nov 6 11:18:04 CET 2018

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