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

LTB (lymphotoxin beta)

Identity

Alias (NCBI)TNFC
TNFSF3
TNLG1C
p33
HGNC (Hugo) LTB
HGNC Alias symbp33
TNFSF3
HGNC Alias nameTNF superfamily member 3
HGNC Previous nameTNFC
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    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
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)
GoldenPathLTB - 6p21.33 [CytoView hg19]  LTB - 6p21.33 [CytoView hg38]
ImmunoBaseENSG00000227507
Genome Data Viewer NCBILTB [Mapview hg19]  
OMIM600978   
Gene and transcription
Genbank (Entrez)AK312210 BC055090 BC055094 BC069330 BC093783
RefSeq transcript (Entrez)NM_002341 NM_009588
Consensus coding sequences : CCDS (NCBI)LTB
Gene ExpressionLTB [ NCBI-GEO ]   LTB [ EBI - ARRAY_EXPRESS ]   LTB [ SEEK ]   LTB [ MEM ]
Gene Expression Viewer (FireBrowse)LTB [ Firebrowse - Broad ]
GenevisibleExpression of LTB 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
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
PDB (RSDB)4MXW   
PDB Europe4MXW   
PDB (PDBSum)4MXW   
PDB (IMB)4MXW   
Structural Biology KnowledgeBase4MXW   
SCOP (Structural Classification of Proteins)4MXW   
CATH (Classification of proteins structures)4MXW   
SuperfamilyQ06643
AlphaFold pdb e-kbQ06643   
Human Protein Atlas [tissue]ENSG00000227507-LTB [tissue]
HPRD02987
Protein Interaction databases
DIP (DOE-UCLA)Q06643
IntAct (EBI)Q06643
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  integral component of membrane  positive regulation of interleukin-12 production  tumor necrosis factor-mediated signaling pathway  skin development  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  integral component of membrane  positive regulation of interleukin-12 production  tumor necrosis factor-mediated signaling pathway  skin development  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
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
MonarchLTB
1000_GenomesLTB 
Exome Variant ServerLTB
GNOMAD BrowserENSG00000227507
Varsome BrowserLTB
ACMGLTB variants
VarityQ06643
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]  
Somatic Mutations in Cancer : COSMIC3DLTB
Mutations and Diseases : HGMDLTB
LOVD (Leiden Open Variation Database)[gene] [transcripts] [variants]
BioMutaLTB
DgiDB (Drug Gene Interaction Database)LTB
DoCM (Curated mutations)LTB
CIViC (Clinical Interpretations of Variants in Cancer)LTB
Cancer3DLTB
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM600978   
Orphanet
DisGeNETLTB
MedgenLTB
Genetic Testing Registry LTB
NextProtQ06643 [Medical]
GENETestsLTB
Target ValidationLTB
Huge Navigator LTB [HugePedia]
ClinGenLTB
Clinical trials, drugs, therapy
MyCancerGenomeLTB
Protein Interactions : CTDLTB
Pharm GKB GenePA30475
PharosQ06643
Clinical trialLTB
Miscellaneous
canSAR (ICR)LTB
HarmonizomeLTB
DataMed IndexLTB
Probes
Litterature
PubMed57 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
EVEXLTB
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 : Mon Oct 4 15:17:13 CEST 2021

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.