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Aliases for TNFRSF13B Gene

Aliases for TNFRSF13B Gene

  • Tumor Necrosis Factor Receptor Superfamily, Member 13B 2 3
  • TACI 3 4 6
  • Transmembrane Activator And CAML Interactor 3 4
  • CVID2 3 6
  • Tumor Necrosis Factor Receptor Superfamily Member 13B 3
  • Tumor Necrosis Factor Receptor 13B 3
  • CD267 Antigen 4
  • TNFRSF14B 3
  • CD267 3
  • IGAD2 3
  • CVID 3
  • RYZN 3

External Ids for TNFRSF13B Gene

Summaries for TNFRSF13B Gene

Entrez Gene Summary for TNFRSF13B Gene

  • The protein encoded by this gene is a lymphocyte-specific member of the tumor necrosis factor (TNF) receptor superfamily. It interacts with calcium-modulator and cyclophilin ligand (CAML). The protein induces activation of the transcription factors NFAT, AP1, and NF-kappa-B and plays a crucial role in humoral immunity by interacting with a TNF ligand. This gene is located within the Smith-Magenis syndrome region on chromosome 17. [provided by RefSeq, Jul 2008]

GeneCards Summary for TNFRSF13B Gene

TNFRSF13B (Tumor Necrosis Factor Receptor Superfamily, Member 13B) is a Protein Coding gene. Diseases associated with TNFRSF13B include immunoglobulin a deficiency 2 and immunodeficiency, common variable, 2. Among its related pathways are Akt Signaling and Akt Signaling. GO annotations related to this gene include receptor activity.

UniProtKB/Swiss-Prot for TNFRSF13B Gene

  • Receptor for TNFSF13/APRIL and TNFSF13B/TALL1/BAFF/BLYS that binds both ligands with similar high affinity. Mediates calcineurin-dependent activation of NF-AT, as well as activation of NF-kappa-B and AP-1. Involved in the stimulation of B- and T-cell function and the regulation of humoral immunity.

Gene Wiki entry for TNFRSF13B Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TNFRSF13B Gene

Genomics for TNFRSF13B Gene

Genomic Location for TNFRSF13B Gene

Start:
16,929,816 bp from pter
End:
16,972,118 bp from pter
Size:
42,303 bases
Orientation:
Minus strand

Genomic View for TNFRSF13B Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for TNFRSF13B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TNFRSF13B Gene

Regulatory Elements for TNFRSF13B Gene

Proteins for TNFRSF13B Gene

  • Protein details for TNFRSF13B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O14836-TR13B_HUMAN
    Recommended name:
    Tumor necrosis factor receptor superfamily member 13B
    Protein Accession:
    O14836
    Secondary Accessions:
    • B2R8B0
    • B7Z6V8
    • Q32LX4
    • Q7Z6F5

    Protein attributes for TNFRSF13B Gene

    Size:
    293 amino acids
    Molecular mass:
    31816 Da
    Quaternary structure:
    • Binds TRAF2, TRAF5 and TRAF6. Binds the NH2-terminal domain of CAMLG with its C-terminus.

    Three dimensional structures from OCA and Proteopedia for TNFRSF13B Gene

    Alternative splice isoforms for TNFRSF13B Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TNFRSF13B Gene

Proteomics data for TNFRSF13B Gene at MOPED

Post-translational modifications for TNFRSF13B Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for TNFRSF13B Gene

No data available for DME Specific Peptides for TNFRSF13B Gene

Domains for TNFRSF13B Gene

Gene Families for TNFRSF13B Gene

HGNC:
  • CD :CD molecules
  • TNFRSF :Tumor necrosis factor receptor superfamily
IUPHAR :

Protein Domains for TNFRSF13B Gene

Suggested Antigen Peptide Sequences for TNFRSF13B Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

O14836

UniProtKB/Swiss-Prot:

TR13B_HUMAN
Similarity:
  • Contains 2 TNFR-Cys repeats.:
    • O14836
genes like me logo Genes that share domains with TNFRSF13B: view

Function for TNFRSF13B Gene

Molecular function for TNFRSF13B Gene

UniProtKB/Swiss-Prot Function: Receptor for TNFSF13/APRIL and TNFSF13B/TALL1/BAFF/BLYS that binds both ligands with similar high affinity. Mediates calcineurin-dependent activation of NF-AT, as well as activation of NF-kappa-B and AP-1. Involved in the stimulation of B- and T-cell function and the regulation of humoral immunity.

Gene Ontology (GO) - Molecular Function for TNFRSF13B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004872 receptor activity TAS 9311921
GO:0005515 protein binding IPI 10801128
genes like me logo Genes that share ontologies with TNFRSF13B: view
genes like me logo Genes that share phenotypes with TNFRSF13B: view

Animal Models for TNFRSF13B Gene

MGI Knock Outs for TNFRSF13B:

miRNA for TNFRSF13B Gene

miRTarBase miRNAs that target TNFRSF13B

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targeting and HOMER Transcription for TNFRSF13B Gene

Localization for TNFRSF13B Gene

Subcellular locations from UniProtKB/Swiss-Prot for TNFRSF13B Gene

Membrane; Single-pass type III membrane protein.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for TNFRSF13B Gene COMPARTMENTS Subcellular localization image for TNFRSF13B gene
Compartment Confidence
plasma membrane 4
cytosol 1
endoplasmic reticulum 1
extracellular 1
golgi apparatus 1
lysosome 1
mitochondrion 1
nucleus 1

Gene Ontology (GO) - Cellular Components for TNFRSF13B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005887 integral component of plasma membrane IEA --
GO:0009897 external side of plasma membrane IEA --
genes like me logo Genes that share ontologies with TNFRSF13B: view

Pathways for TNFRSF13B Gene

genes like me logo Genes that share pathways with TNFRSF13B: view

Gene Ontology (GO) - Biological Process for TNFRSF13B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001782 B cell homeostasis IEA --
GO:0002244 hematopoietic progenitor cell differentiation IEA --
GO:0007166 cell surface receptor signaling pathway TAS 9311921
GO:0030889 negative regulation of B cell proliferation IEA --
genes like me logo Genes that share ontologies with TNFRSF13B: view

Compounds for TNFRSF13B Gene

(1) IUPHAR Ligand for TNFRSF13B Gene

Ligand Type Action Affinity Pubmed IDs
BAFF None None

(3) Novoseek inferred chemical compound relationships for TNFRSF13B Gene

Compound -log(P) Hits PubMed IDs
bcma 98.8 63
blys 95.8 33
calcium 0 3
genes like me logo Genes that share compounds with TNFRSF13B: view

Transcripts for TNFRSF13B Gene

mRNA/cDNA for TNFRSF13B Gene

(1) REFSEQ mRNAs :
(7) Additional mRNA sequences :
(12) Selected AceView cDNA sequences:
(7) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for TNFRSF13B Gene

Tumor necrosis factor receptor superfamily, member 13B:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for TNFRSF13B Gene

No ASD Table

Relevant External Links for TNFRSF13B Gene

GeneLoc Exon Structure for
TNFRSF13B
ECgene alternative splicing isoforms for
TNFRSF13B

Expression for TNFRSF13B Gene

mRNA expression in normal human tissues for TNFRSF13B Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for TNFRSF13B Gene

This gene is overexpressed in Spleen (6.3).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for TNFRSF13B Gene

SOURCE GeneReport for Unigene cluster for TNFRSF13B Gene Hs.158341

mRNA Expression by UniProt/SwissProt for TNFRSF13B Gene

O14836-TR13B_HUMAN
Tissue specificity: Highly expressed in spleen, thymus, small intestine and peripheral blood leukocytes. Expressed in resting B-cells and activated T-cells, but not in resting T-cells
genes like me logo Genes that share expressions with TNFRSF13B: view

Orthologs for TNFRSF13B Gene

This gene was present in the common ancestor of chordates.

Orthologs for TNFRSF13B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TNFRSF13B 35
  • 99.54 (n)
  • 99.66 (a)
TNFRSF13B 36
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia TNFRSF13B 36
  • 56 (a)
OneToOne
dog
(Canis familiaris)
Mammalia TNFRSF13B 35
  • 77.25 (n)
  • 69.28 (a)
TNFRSF13B 36
  • 65 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Tnfrsf13b 35
  • 68.64 (n)
  • 56.78 (a)
Tnfrsf13b 16
Tnfrsf13b 36
  • 51 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia TNFRSF13B 36
  • 42 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia TNFRSF13B 36
  • 46 (a)
OneToOne
chicken
(Gallus gallus)
Aves TNFRSF13B 35
  • 56.09 (n)
  • 43.04 (a)
TNFRSF13B 36
  • 34 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia TNFRSF13B 36
  • 38 (a)
OneToOne
Species with no ortholog for TNFRSF13B:
  • 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)
  • 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)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • 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 TNFRSF13B Gene

ENSEMBL:
Gene Tree for TNFRSF13B (if available)
TreeFam:
Gene Tree for TNFRSF13B (if available)

Paralogs for TNFRSF13B Gene

Selected SIMAP similar genes for TNFRSF13B Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with TNFRSF13B: view

No data available for Paralogs for TNFRSF13B Gene

Variants for TNFRSF13B Gene

Sequence variations from dbSNP and Humsavar for TNFRSF13B Gene

SNP ID Clin Chr 17 pos Sequence Context AA Info Type MAF
rs1004439 -- 16,938,610(+) ACAAC(A/G)CACAC downstream-variant-500B
rs2274892 -- 16,948,713(-) CCTGC(A/C)TGGTG intron-variant
rs3818716 -- 16,948,520(-) CTGCC(A/G)TGTGA intron-variant
rs3892371 -- 16,944,116(-) CCCCA(A/C)CCCAG intron-variant
rs4239139 -- 16,944,017(+) GCCCT(C/G)CTCTC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for TNFRSF13B Gene

Variant ID Type Subtype PubMed ID
nsv833379 CNV Gain 17160897
nsv155 OTHER Inversion 15895083
nsv499114 OTHER Inversion 21111241
nsv907726 CNV Gain 21882294
esv275147 CNV Gain+Loss 21479260
esv2666300 CNV Deletion 23128226
esv2662060 CNV Deletion 23128226
nsv524738 CNV Loss 19592680

Relevant External Links for TNFRSF13B Gene

HapMap Linkage Disequilibrium report
TNFRSF13B
Human Gene Mutation Database (HGMD)
TNFRSF13B
Locus Specific Mutation Databases (LSDB)
TNFRSF13B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TNFRSF13B Gene

Disorders for TNFRSF13B Gene

(2) OMIM Diseases for TNFRSF13B Gene (604907)

UniProtKB/Swiss-Prot

TR13B_HUMAN
  • Immunodeficiency, common variable, 2 (CVID2) [MIM:240500]: A primary immunodeficiency characterized by antibody deficiency, hypogammaglobulinemia, recurrent bacterial infections and an inability to mount an antibody response to antigen. The defect results from a failure of B-cell differentiation and impaired secretion of immunoglobulins; the numbers of circulating B-cells is usually in the normal range, but can be low. {ECO:0000269 PubMed:16007086}. Note=The disease is caused by mutations affecting the gene represented in this entry.
  • Immunoglobulin A deficiency 2 (IGAD2) [MIM:609529]: Selective deficiency of immunoglobulin A (IGAD) is the most common form of primary immunodeficiency, with an incidence of approximately 1 in 600 individuals in the western world. Individuals with symptomatic IGAD often have deficiency of IgG subclasses or decreased antibody response to carbohydrate antigens such as pneumococcal polysaccharide vaccine. Individuals with IGAD also suffer from recurrent sinopulmonary and gastrointestinal infections and have an increased incidence of autoimmune disorders and of lymphoid and non-lymphoid malignancies. In vitro studies have suggested that some individuals with IGAD have impaired isotype class switching to IgA and others may have a post-switch defect. IGAD and CVID have been known to coexist in families. Some individuals initially present with IGAD1 and then develop CVID. These observations suggest that some cases of IGAD and CVID may have a common etiology. {ECO:0000269 PubMed:16007086}. Note=The disease is caused by mutations affecting the gene represented in this entry.

(2) University of Copenhagen DISEASES for TNFRSF13B Gene

(13) Novoseek inferred disease relationships for TNFRSF13B Gene

Disease -log(P) Hits PubMed IDs
common variable immunodeficiency 85.3 11
antibody deficiency syndrome 78.8 1
iga deficiency 64.6 3
autoimmune diseases 49.4 1
autoimmunity 48 1

Relevant External Links for TNFRSF13B

GeneTests
TNFRSF13B
GeneReviews
TNFRSF13B
Genetic Association Database (GAD)
TNFRSF13B
Human Genome Epidemiology (HuGE) Navigator
TNFRSF13B
genes like me logo Genes that share disorders with TNFRSF13B: view

Publications for TNFRSF13B Gene

  1. Tumor necrosis factor (TNF) receptor superfamily member TACI is a high affinity receptor for TNF family members APRIL and BLyS. (PMID: 10956646) Wu Y. … Baker K.P. (J. Biol. Chem. 2000) 3 4 23
  2. TACI is mutant in common variable immunodeficiency and IgA deficiency. (PMID: 16007086) Castigli E. … Geha R.S. (Nat. Genet. 2005) 3 4 23
  3. Role of polymorphisms in the TNFRSF13B (TACI) gene in Spanish patients with immunoglobulin A deficiency. (PMID: 19392801) LA^pez-MejA-as R. … NA_A+ez C. (Tissue Antigens 2009) 3 23 48
  4. An evolutionary approach to the medical implications of the tumor necrosis factor receptor superfamily member 13B (TNFRSF13B) gene. (PMID: 19494827) Sazzini M. … Luiselli D. (Genes Immun. 2009) 3 23 48
  5. Novel mutations in TACI (TNFRSF13B) causing common variable immunodeficiency. (PMID: 19629655) Mohammadi J. … HammarstrAPm L. (J. Clin. Immunol. 2009) 3 23 48

Products for TNFRSF13B Gene

  • Pathway & Disease-focused RT² Profiler PCR Arrays
    • T-cell & B-cell Activation in human,mouse,rat
    • TNF Ligands & Receptors in human,mouse,rat
  • QIAGEN qRT-PCR Assays for microRNAs that regulate TNFRSF13B
    • QuantiTect SYBR Green Assays in human,mouse,rat
    • Pre-validated RT² qPCR Primer Assay in human,mouse,rat
    • QuantiFast Probe-based Assays in human,mouse,rat
    • Predesigned siRNA for gene silencing in human,mouse,rat for TNFRSF13B
    • Block miRNA regulation of TNFRSF13B using miScript Target Protectors

    Sources for TNFRSF13B Gene

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