Tnfsf13b TNF superfamily member 13b [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Tnfsf13bprovided by RGD
Official Full Name: TNF superfamily member 13bprovided by RGD
Primary source: RGD:1561519
See related: EnsemblRapid:ENSRNOG00000014464 AllianceGenome:RGD:1561519
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: BAFF; Tnlg7a; RGD1561519
Summary: Predicted to enable receptor ligand activity. Predicted to be involved in positive regulation of B cell proliferation and tumor necrosis factor-mediated signaling pathway. Predicted to act upstream of or within several processes, including positive regulation of germinal center formation; positive regulation of lymphocyte activation; and transitional one stage B cell differentiation. Predicted to be located in several cellular components, including focal adhesion; perinuclear region of cytoplasm; and plasma membrane. Predicted to be active in extracellular space. Orthologous to human TNFSF13B (TNF superfamily member 13b). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Adrenal (RPKM 48.8), Lung (RPKM 29.2) and 7 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 16q12.5

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	16	NC_086034.1 (86164377..86195072, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	16	NC_051351.1 (79462406..79492888, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	16	NC_005115.4 (85275690..85306419, complement)

Chromosome 16 - NC_086034.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Inhibiting B cell activating factor attenuates preeclamptic symptoms in placental ischemic rats.
Title: Inhibiting B cell activating factor attenuates preeclamptic symptoms in placental ischemic rats.
CP-25 attenuates the inflammatory response of fibroblast-like synoviocytes from arthritic rats co-cultured with BAFF-activated CD4(+) T cells.
Title: CP-25 attenuates the inflammatory response of fibroblast-like synoviocytes co-cultured with BAFF-activated CD4(+) T cells.
increased spleen levels at early stage of adjuvant induced arthritis
Title: BAFF and its receptors involved in the inflammation progress in adjuvant induced arthritis rats.
role of TLR3/BAFF axis in IgA class-switch recombination of IgA nephropathy
Title: Synthetic Double-Stranded RNA Poly(I:C) Aggravates IgA Nephropathy by Triggering IgA Class Switching Recombination through the TLR3-BAFF Axis.
Overproduction of TNFSF13b may contribute to T cell responses and may be an attractive target for control of autoimmune diseases, such as RA, that involves both T and B cells
Title: Expression and effects of B-lymphocyte stimulator and its receptors in T cell-mediated autoimmune arthritis.
BAFF/BAFF-R involved in autoantibody production in rats with collagen-induced arthritis via PI3K-Akt-mTOR signaling and the regulation of paeoniflorin.
Title: BAFF/BAFF-R involved in antibodies production of rats with collagen-induced arthritis via PI3K-Akt-mTOR signaling and the regulation of paeoniflorin.
Soluble BAFF levels inversely correlate with peripheral B cell numbers and the expression of BAFF receptors.
Title: Soluble BAFF levels inversely correlate with peripheral B cell numbers and the expression of BAFF receptors.

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General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables cytokine activity	IEA Inferred from Electronic Annotation more info
enables receptor ligand activity	IBA Inferred from Biological aspect of Ancestor more info
enables tumor necrosis factor receptor binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within B cell costimulation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within B cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in B cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within B cell homeostasis	ISO Inferred from Sequence Orthology more info
acts_upstream_of B cell proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within T cell costimulation	ISO Inferred from Sequence Orthology more info
acts_upstream_of T cell proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of germinal center formation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of B cell proliferation	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within positive regulation of B cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of B cell proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of T cell proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of germinal center formation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of immune response	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within skin development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within transitional one stage B cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in tumor necrosis factor-mediated signaling pathway	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info
located_in focal adhesion	IEA Inferred from Electronic Annotation more info
located_in focal adhesion	ISO Inferred from Sequence Orthology more info
located_in intracellular membrane-bounded organelle	IEA Inferred from Electronic Annotation more info
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in perinuclear region of cytoplasm	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: tumor necrosis factor ligand superfamily member 13B

Names: B-cell-activating factor; tumor necrosis factor (ligand) superfamily, member 13b; tumor necrosis factor ligand 7a; tumor necrosis factor superfamily member 13b

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001395721.1 → NP_001382650.1 tumor necrosis factor ligand superfamily member 13B

Status: VALIDATED

Source sequence(s)

JAXUCZ010000016

UniProtKB/TrEMBL

A0A096MJG3, A0A0U5JXV5

Related

ENSRNOP00000073755.2, ENSRNOT00000089650.3

Conserved Domains (1) summary

cd00184
Location:154 → 290

TNF; Tumor Necrosis Factor; TNF superfamily members include the cytokines: TNF (TNF-alpha), LT (lymphotoxin-alpha, TNF-beta), CD40 ligand, Apo2L (TRAIL), Fas ligand, and osteoprotegerin (OPG) ligand. These proteins generally have an intracellular N-terminal ...

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086034.1 Reference GRCr8

Range

86164377..86195072 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006253483.5 → XP_006253545.1 tumor necrosis factor ligand superfamily member 13B isoform X3

UniProtKB/TrEMBL

A0A096MJG3, A0A0G2K6C2

Conserved Domains (1) summary

cd00184
Location:143 → 271

TNF; Tumor Necrosis Factor; TNF superfamily members include the cytokines: TNF (TNF-alpha), LT (lymphotoxin-alpha, TNF-beta), CD40 ligand, Apo2L (TRAIL), Fas ligand, and osteoprotegerin (OPG) ligand. These proteins generally have an intracellular N-terminal ...
XM_006253481.5 → XP_006253543.1 tumor necrosis factor ligand superfamily member 13B isoform X2

See identical proteins and their annotated locations for XP_006253543.1

UniProtKB/TrEMBL

A0A096MJG3, A6IWR7

Related

ENSRNOP00000068118.3, ENSRNOT00000076737.4

Conserved Domains (1) summary

cd00184
Location:180 → 303

TNF; Tumor Necrosis Factor; TNF superfamily members include the cytokines: TNF (TNF-alpha), LT (lymphotoxin-alpha, TNF-beta), CD40 ligand, Apo2L (TRAIL), Fas ligand, and osteoprotegerin (OPG) ligand. These proteins generally have an intracellular N-terminal ...
XM_006253480.5 → XP_006253542.1 tumor necrosis factor ligand superfamily member 13B isoform X1

See identical proteins and their annotated locations for XP_006253542.1

UniProtKB/TrEMBL

A0A096MJG3, A6IWR8, D3ZFD8

Related

ENSRNOP00000062950.2, ENSRNOT00000067511.4

Conserved Domains (1) summary

cd00184
Location:186 → 322

TNF; Tumor Necrosis Factor; TNF superfamily members include the cytokines: TNF (TNF-alpha), LT (lymphotoxin-alpha, TNF-beta), CD40 ligand, Apo2L (TRAIL), Fas ligand, and osteoprotegerin (OPG) ligand. These proteins generally have an intracellular N-terminal ...
XM_063275652.1 → XP_063131722.1 tumor necrosis factor ligand superfamily member 13B isoform X4

UniProtKB/TrEMBL

A6IWR9

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_001109112.1: Suppressed sequence

Description

NM_001109112.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.