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Aliases for LTBR Gene

Aliases for LTBR Gene

  • Lymphotoxin Beta Receptor 2 3 5
  • Tumor Necrosis Factor Receptor 2-Related Protein 3 4
  • Tumor Necrosis Factor Receptor Type III 3 4
  • Tumor Necrosis Factor C Receptor 3 4
  • D12S370 3 4
  • TNFRSF3 3 4
  • TNFCR 3 4
  • TNFR3 3 4
  • Lymphotoxin Beta Receptor (TNFR Superfamily, Member 3) 3
  • Tumor Necrosis Factor Receptor Superfamily Member 3 3
  • TNFR Superfamily, Member 3 2
  • Lymphotoxin-Beta Receptor 4
  • Lymphotoxin B Receptor 3
  • LT-BETA-R 3
  • TNF-R-III 3
  • TNFR2-RP 3
  • TNF-RIII 4
  • TNFR-III 4
  • TNFR-RP 3
  • CD18 3

External Ids for LTBR Gene

Previous HGNC Symbols for LTBR Gene

  • D12S370

Previous GeneCards Identifiers for LTBR Gene

  • GC12P006348
  • GC12P006467
  • GC12P006363
  • GC12P006347
  • GC12P006484

Summaries for LTBR Gene

Entrez Gene Summary for LTBR Gene

  • This gene encodes a member of the tumor necrosis factor receptor superfamily. The major ligands of this receptor include lymphotoxin alpha/beta and tumor necrosis factor ligand superfamily member 14. The encoded protein plays a role in signalling during the development of lymphoid and other organs, lipid metabolism, immune response, and programmed cell death. Activity of this receptor has also been linked to carcinogenesis. Alternatively spliced transcript variants encoding multiple isoforms have been observed. [provided by RefSeq, Aug 2012]

GeneCards Summary for LTBR Gene

LTBR (Lymphotoxin Beta Receptor) is a Protein Coding gene. Among its related pathways are TRAF Pathway and Innate Immune System. GO annotations related to this gene include identical protein binding and ubiquitin protein ligase binding. An important paralog of this gene is TNFRSF1B.

UniProtKB/Swiss-Prot for LTBR Gene

  • Receptor for the heterotrimeric lymphotoxin containing LTA and LTB, and for TNFS14/LIGHT. Promotes apoptosis via TRAF3 and TRAF5. May play a role in the development of lymphoid organs.

Gene Wiki entry for LTBR Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LTBR Gene

Genomics for LTBR Gene

Regulatory Elements for LTBR Gene

Enhancers for LTBR Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH12G006382 1.4 ENCODE dbSUPER 32.5 +9.1 9054 3.1 MLX CREB3L1 ZFP64 DMAP1 YY1 SLC30A9 ZNF143 ZNF548 SP3 NFYC LTBR ENSG00000219410 ENSG00000247853 TNFRSF1A PLEKHG6 CD27-AS1 TAPBPL IFFO1 NOP2 SCARNA12
GH12G006391 1.1 Ensembl ENCODE dbSUPER 30.8 +17.4 17390 2.1 ZNF362 ZBTB40 ATF2 ZBTB49 ZNF121 ZNF791 POLR2A KDM5B SPI1 RBFOX2 LTBR ENSG00000219410 LOC105369628 TNFRSF1A CD27 NCAPD2 SCARNA10 C12orf57 VAMP1 PHB2
GH12G006344 1.9 FANTOM5 Ensembl ENCODE dbSUPER 12.4 -28.4 -28436 3.6 PKNOX1 ATF1 CREB3L1 ARNT E2F7 SIN3A BRCA1 TCF12 GATA2 FOS CHD4 LTBR SCNN1A VAMP1 ENSG00000247853 SCARNA11 ACRBP IFFO1 NOP2 ENSG00000219410
GH12G006331 1.8 FANTOM5 ENCODE dbSUPER 12.6 -36.9 -36907 12.7 CREB3L1 MLX FEZF1 DMAP1 YBX1 YY1 SLC30A9 ZNF143 ZNF263 SP3 ENSG00000219410 ENSG00000247853 NCAPD2 SPSB2 VAMP1 TAPBPL SCNN1A LTBR CD27-AS1 PLEKHG6
GH12G006610 2 FANTOM5 Ensembl ENCODE dbSUPER 10 +238.5 238453 5.4 CREB3L1 MLX DMAP1 FEZF1 YY1 SLC30A9 ZNF143 ZNF263 SP3 NFYC ENSG00000219410 ENSG00000247853 NCAPD2 CDCA3 SPSB2 LOC100419928 TNFRSF1A C1RL-AS1 ENSG00000256967 NOP2
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around LTBR on UCSC Golden Path with GeneCards custom track

Genomic Location for LTBR Gene

Chromosome:
12
Start:
6,375,045 bp from pter
End:
6,391,571 bp from pter
Size:
16,527 bases
Orientation:
Plus strand

Genomic View for LTBR Gene

Genes around LTBR on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LTBR Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LTBR Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LTBR Gene

Proteins for LTBR Gene

  • Protein details for LTBR Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P36941-TNR3_HUMAN
    Recommended name:
    Tumor necrosis factor receptor superfamily member 3
    Protein Accession:
    P36941
    Secondary Accessions:
    • B7Z1D2
    • D3DUR2
    • F5GXE7

    Protein attributes for LTBR Gene

    Size:
    435 amino acids
    Molecular mass:
    46709 Da
    Quaternary structure:
    • Self-associates. Associates with TRAF3, TRAF4 and TRAF5. Interacts with HCV core protein.

    Three dimensional structures from OCA and Proteopedia for LTBR Gene

    Alternative splice isoforms for LTBR Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for LTBR Gene

Post-translational modifications for LTBR Gene

  • Glycosylation at posLast=4040 and posLast=177177
  • Modification sites at PhosphoSitePlus

Antibody Products

  • R&D Systems Antibodies for LTBR (Lymphotoxin beta R/TNFRSF3)
  • Abcam antibodies for LTBR

Assay Products

  • Cloud-Clone Corp. Assay Kits for LTBR

No data available for DME Specific Peptides for LTBR Gene

Domains & Families for LTBR Gene

Protein Domains for LTBR Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with LTBR: view

No data available for UniProtKB/Swiss-Prot for LTBR Gene

Function for LTBR Gene

Molecular function for LTBR Gene

GENATLAS Biochemistry:
lymphotoxin B receptor,(tumor necrosis factor receptor TNFR superfamily,member 3),expressed at the surface of most cell types,including cells of epithelial and myeloid lineages but not on T and B cells,involved in lymphoid organ development and apoptosis through interaction with TRAF3
UniProtKB/Swiss-Prot Function:
Receptor for the heterotrimeric lymphotoxin containing LTA and LTB, and for TNFS14/LIGHT. Promotes apoptosis via TRAF3 and TRAF5. May play a role in the development of lymphoid organs.

Gene Ontology (GO) - Molecular Function for LTBR Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005031 tumor necrosis factor-activated receptor activity IBA --
GO:0005515 protein binding IPI 8995654
GO:0031625 ubiquitin protein ligase binding IPI 11279055
GO:0042802 identical protein binding IPI 20732415
genes like me logo Genes that share ontologies with LTBR: view
genes like me logo Genes that share phenotypes with LTBR: view

Animal Models for LTBR Gene

MGI Knock Outs for LTBR:

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for LTBR
  • R&D Systems cDNA Clones for LTBR (Lymphotoxin beta R/TNFRSF3)

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for LTBR Gene

Localization for LTBR Gene

Subcellular locations from UniProtKB/Swiss-Prot for LTBR Gene

Membrane; Single-pass type I membrane protein.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for LTBR gene
Compartment Confidence
plasma membrane 5
extracellular 2
cytosol 2
golgi apparatus 2
peroxisome 1
nucleus 1

Gene Ontology (GO) - Cellular Components for LTBR Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane TAS --
GO:0005887 integral component of plasma membrane IBA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with LTBR: view

Pathways & Interactions for LTBR Gene

genes like me logo Genes that share pathways with LTBR: view

SIGNOR curated interactions for LTBR Gene

Activates:
Is activated by:

Gene Ontology (GO) - Biological Process for LTBR Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006915 apoptotic process IEA --
GO:0006954 inflammatory response IBA --
GO:0006955 immune response IBA,IEA --
GO:0007165 signal transduction TAS 8171323
GO:0007275 multicellular organism development IBA --
genes like me logo Genes that share ontologies with LTBR: view

Drugs & Compounds for LTBR Gene

(3) Drugs for LTBR Gene - From: DGIdb, IUPHAR, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
LIGHT Pharma 0

(3) Additional Compounds for LTBR Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with LTBR: view

Transcripts for LTBR Gene

mRNA/cDNA for LTBR Gene

Unigene Clusters for LTBR Gene

Lymphotoxin beta receptor (TNFR superfamily, member 3):
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for LTBR
  • R&D Systems cDNA Clones for LTBR (Lymphotoxin beta R/TNFRSF3)

Alternative Splicing Database (ASD) splice patterns (SP) for LTBR Gene

ExUns: 1a · 1b · 1c · 1d · 1e ^ 2 ^ 3a · 3b · 3c · 3d ^ 4 ^ 5a · 5b · 5c ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11
SP1: - - -
SP2: - - - -
SP3: - -
SP4: - - - - - -
SP5: -
SP6: -
SP7:
SP8: - -

Relevant External Links for LTBR Gene

GeneLoc Exon Structure for
LTBR
ECgene alternative splicing isoforms for
LTBR

Expression for LTBR Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for LTBR Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for LTBR Gene

This gene is overexpressed in Placenta (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for LTBR Gene



Protein tissue co-expression partners for LTBR Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of LTBR Gene:

LTBR

SOURCE GeneReport for Unigene cluster for LTBR Gene:

Hs.1116

Evidence on tissue expression from TISSUES for LTBR Gene

  • Lung(4.6)
  • Liver(4.5)
  • Adrenal gland(4.3)
  • Spleen(3)
  • Nervous system(3)
  • Intestine(2.9)
  • Lymph node(2.9)
  • Blood(2.7)
  • Heart(2)
  • Skin(2)
genes like me logo Genes that share expression patterns with LTBR: view

Primer Products

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for LTBR Gene

Orthologs for LTBR Gene

This gene was present in the common ancestor of mammals.

Orthologs for LTBR Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LTBR 34 35
  • 98.85 (n)
dog
(Canis familiaris)
Mammalia LTBR 34 35
  • 80.69 (n)
cow
(Bos Taurus)
Mammalia LTBR 34 35
  • 78.18 (n)
mouse
(Mus musculus)
Mammalia Ltbr 34 16 35
  • 76.28 (n)
rat
(Rattus norvegicus)
Mammalia Ltbr 34
  • 76.1 (n)
oppossum
(Monodelphis domestica)
Mammalia LTBR 35
  • 56 (a)
OneToOne
Species where no ortholog for LTBR was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for LTBR Gene

ENSEMBL:
Gene Tree for LTBR (if available)
TreeFam:
Gene Tree for LTBR (if available)

Paralogs for LTBR Gene

genes like me logo Genes that share paralogs with LTBR: view

Variants for LTBR Gene

Sequence variations from dbSNP and Humsavar for LTBR Gene

SNP ID Clin Chr 12 pos Sequence Context AA Info Type
rs61759860 Pathogenic 6,374,543(-) ACAAC(C/T)GCATG downstream-variant-500B, upstream-variant-2KB, reference, missense
rs61759861 Pathogenic 6,374,444(-) ACCCC(A/G)TCAGC downstream-variant-500B, upstream-variant-2KB, reference, missense
rs13306619 Likely benign 6,374,685(-) GGCCC(C/T)GAACC downstream-variant-500B, upstream-variant-2KB, reference, synonymous-codon
rs144763378 Likely benign 6,374,465(+) CTCTC(C/T)GAAAA downstream-variant-500B, upstream-variant-2KB, reference, missense
rs150809388 Likely benign 6,374,831(+) CAGCT(C/T)GTTCC downstream-variant-500B, upstream-variant-2KB, reference, missense, utr-variant-5-prime

Structural Variations from Database of Genomic Variants (DGV) for LTBR Gene

Variant ID Type Subtype PubMed ID
esv2759876 CNV gain 17122850
esv34325 CNV gain 17911159
nsv952790 CNV deletion 24416366

Variation tolerance for LTBR Gene

Residual Variation Intolerance Score: 39.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.07; 50.65% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for LTBR Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LTBR

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LTBR Gene

Disorders for LTBR Gene

Relevant External Links for LTBR

Genetic Association Database (GAD)
LTBR
Human Genome Epidemiology (HuGE) Navigator
LTBR
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
LTBR

No disorders were found for LTBR Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LTBR Gene

Publications for LTBR Gene

  1. A lymphotoxin-beta-specific receptor. (PMID: 8171323) Crowe P.D. … Smith C.A. (Science 1994) 2 3 4 22 64
  2. The lymphotoxin-beta receptor is necessary and sufficient for LIGHT- mediated apoptosis of tumor cells. (PMID: 10799510) Rooney I.A. … Ware C.F. (J. Biol. Chem. 2000) 3 4 22 64
  3. The cytoplasmic domain of the lymphotoxin-beta receptor mediates cell death in HeLa cells. (PMID: 10207006) Wu M.-Y. … Hsieh S.-L. (J. Biol. Chem. 1999) 3 4 22 64
  4. Cloning and characterization of a cDNA encoding the human homolog of tumor necrosis factor receptor-associated factor 5 (TRAF5). (PMID: 9511754) Mizushima S. … Inoue J. (Gene 1998) 3 4 22 64
  5. TRAF-4 expression in epithelial progenitor cells. Analysis in normal adult, fetal, and tumor tissues. (PMID: 9626059) Krajewska M. … Reed J.C. (Am. J. Pathol. 1998) 3 4 22 64

Products for LTBR Gene

Sources for LTBR Gene

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