Ltb lymphotoxin beta [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Ltbprovided by RGD
Full Name: lymphotoxin betaprovided by RGD
Primary source: RGD:1303162
See related: Ensembl:ENSRNOG00000070531 AllianceGenome:RGD:1303162
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
Summary: Predicted to enable tumor necrosis factor binding activity. Predicted to be involved in positive regulation of interleukin-12 production. Predicted to act upstream of or within gene expression; lymph node development; and skin development. Predicted to be integral component of membrane. Orthologous to human LTB (lymphotoxin beta). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Spleen (RPKM 278.5), Thymus (RPKM 258.4) and 5 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 20p12

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	20	NC_086038.1 (3632209..3634054, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	20	NC_051355.1 (3627536..3629381, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	20	NC_005119.4 (5184631..5186476)

Chromosome 20 - NC_086038.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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?

Hepatic lymphotoxin-beta(LT-beta) expression is induced early following bile duct ligation. Kupffer cells may be an intrahepatic source of LT-beta.
Title: Lymphotoxin-beta production following bile duct ligation: possible role for Kupffer cells.

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 tumor necrosis factor binding	TAS Traceable Author Statement more info	PubMed
enables tumor necrosis factor receptor binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within gene expression	ISO Inferred from Sequence Orthology more info
involved_in immune response	TAS Traceable Author Statement more info	PubMed
acts_upstream_of_or_within lymph node development	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of canonical NF-kappaB signal transduction	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of cell population proliferation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of extrinsic apoptotic signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of interleukin-12 production	ISO Inferred from Sequence Orthology more info
involved_in signal transduction	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within skin development	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in extracellular space	IEA Inferred from Electronic Annotation more info
located_in membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: lymphotoxin-beta

Names: lymphotoxin B; lymphotoxin beta (TNF superfamily, member 3)

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_212507.2 → NP_997672.1 lymphotoxin-beta

See identical proteins and their annotated locations for NP_997672.1

Status: VALIDATED

Source sequence(s)

BC088208

UniProtKB/TrEMBL

F7EMS9, Q6MG45

Related

ENSRNOP00000001108.3, ENSRNOT00000001108.6

Conserved Domains (1) summary

cd00184
Location:154 → 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 ...