Tnfsf13 TNF superfamily member 13 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Tnfsf13provided by RGD
Official Full Name: TNF superfamily member 13provided by RGD
Primary source: RGD:1305871
See related: EnsemblRapid:ENSRNOG00000014171 AllianceGenome:RGD:1305871
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: April; Tnlg7b
Summary: Predicted to enable receptor ligand activity. Predicted to be involved in positive regulation of B cell proliferation and positive regulation of isotype switching to IgA isotypes. Predicted to act upstream of or within immunoglobulin mediated immune response; positive regulation of cell population proliferation; and positive regulation of germinal center formation. Predicted to be located in cytoplasm and external side of plasma membrane. Predicted to be active in extracellular space. Human ortholog(s) of this gene implicated in B-lymphoblastic leukemia/lymphoma. Orthologous to human TNFSF13 (TNF superfamily member 13). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Lung (RPKM 100.1), Kidney (RPKM 97.1) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 10q24

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	10	NC_086028.1 (54898805..54901815, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	10	NC_051345.1 (54400054..54403723, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	10	NC_005109.4 (56286964..56290680, complement)

Chromosome 10 - NC_086028.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

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?

APRIL/BLyS deficient rats prevent donor specific antibody (DSA) production and cell proliferation in rodent kidney transplant model.
Title: APRIL/BLyS deficient rats prevent donor specific antibody (DSA) production and cell proliferation in rodent kidney transplant model.
APRIL may act as an important mediator for facilitating the function of fibroblast-like synoviocyte.
Title: APRIL promotes proliferation, secretion and invasion of fibroblast-like synoviocyte from rats with adjuvant induced arthritis.

Submit: New GeneRIF Correction

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
involved_in biological_process	ND No biological Data available more info
acts_upstream_of germinal center formation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within immunoglobulin mediated immune response	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 cell population 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
involved_in positive regulation of isotype switching to IgA isotypes	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within positive regulation of isotype switching to IgA isotypes	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of immune response	ISO Inferred from Sequence Orthology more info
involved_in signal transduction	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in external side of plasma membrane	ISO Inferred from Sequence Orthology more info
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: tumor necrosis factor ligand superfamily member 13

Names: tumor necrosis factor (ligand) superfamily, member 13; tumor necrosis factor ligand 7b; tumor necrosis factor superfamily member 13

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_001009623.2 → NP_001009623.1 tumor necrosis factor ligand superfamily member 13

See identical proteins and their annotated locations for NP_001009623.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000010

UniProtKB/TrEMBL

A0A8J8XC20, A6HFT3, E9PSM9, Q5PQL1

Related

ENSRNOP00000053740.4, ENSRNOT00000056903.5

Conserved Domains (1) summary

cd00184
Location:108 → 238

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_086028.1 Reference GRCr8

Range

54898805..54901815 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063268640.1 → XP_063124710.1 tumor necrosis factor ligand superfamily member 13 isoform X8

UniProtKB/TrEMBL

A0A0G2K4Q8
XM_039085456.2 → XP_038941384.1 tumor necrosis factor ligand superfamily member 13 isoform X4

UniProtKB/TrEMBL

A0A0G2K4Q8

Conserved Domains (1) summary

cd00184
Location:98 → 222

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_063268638.1 → XP_063124708.1 tumor necrosis factor ligand superfamily member 13 isoform X3

UniProtKB/TrEMBL

A0A0G2K4Q8
XM_008767802.4 → XP_008766024.1 tumor necrosis factor ligand superfamily member 13 isoform X7

UniProtKB/TrEMBL

A0A0G2K4Q8

Related

ENSRNOP00000073136.3, ENSRNOT00000090762.3

Conserved Domains (1) summary

cd00184
Location:109 → 223

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_039085458.2 → XP_038941386.1 tumor necrosis factor ligand superfamily member 13 isoform X6

UniProtKB/TrEMBL

A0A8J8XC20, A6HFT3

Conserved Domains (1) summary

cl00147
Location:108 → 207

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_039085452.2 → XP_038941380.1 tumor necrosis factor ligand superfamily member 13 isoform X2

UniProtKB/TrEMBL

A0A8J8XC20, A6HFT3

Conserved Domains (1) summary

cd00184
Location:108 → 238

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_063268639.1 → XP_063124709.1 tumor necrosis factor ligand superfamily member 13 isoform X5

UniProtKB/TrEMBL

A0A8J8XC20, A6HFT3
XM_008767796.4 → XP_008766018.1 tumor necrosis factor ligand superfamily member 13 isoform X1

See identical proteins and their annotated locations for XP_008766018.1

UniProtKB/TrEMBL

A0A8J8XC20, A6HFT3

Related

ENSRNOP00000106612.1, ENSRNOT00000167300.1

Conserved Domains (1) summary

cd00184
Location:108 → 239

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 ...