Cd5 Cd5 molecule [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Cd5provided by RGD
Full Name: Cd5 moleculeprovided by RGD
Primary source: RGD:2309
See related: Ensembl:ENSRNOG00000020872 AllianceGenome:RGD:2309
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 scavenger receptor activity. Predicted to be involved in T cell costimulation. Predicted to act upstream of or within apoptotic signaling pathway. Is spanning component of plasma membrane. Orthologous to human CD5 (CD5 molecule). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 396.4), Spleen (RPKM 70.5) and 1 other tissue See more
Orthologs: human mouse all
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Genomic context

Location:: 1q43

Exon count:: 11

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (216790245..216811209, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (207365337..207386313, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (226770912..226791861, complement)

Chromosome 1 - NC_086019.1 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?

Data show several homologies across human, rat and mouse in the kinetic of loss of several LAgs such as CD5, CD4 and CD28.
Title: Loss of surface antigens is a conserved feature of apoptotic lymphocytes from several mammalian species.
The fact that both the extracellular and the cytoplasmic domains of CD2 interact with CD5 suggests a specific and tight association between the two molecules, possibly relevant for the fine-tuning of signal transduction in T lymphocytes.
Title: CD2 physically associates with CD5 in rat T lymphocytes with the involvement of both extracellular and intracellular domains.

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General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in T cell costimulation	IBA Inferred from Biological aspect of Ancestor more info
involved_in T cell costimulation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within T cell costimulation	ISO Inferred from Sequence Orthology more info
involved_in apoptotic signaling pathway	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within apoptotic signaling pathway	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cell surface	IDA Inferred from Direct Assay more info	PubMed
located_in external side of plasma membrane	IEA Inferred from Electronic Annotation more info
located_in external side of plasma membrane	ISO Inferred from Sequence Orthology more info
located_in membrane	IEA Inferred from Electronic Annotation more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: T-cell surface glycoprotein CD5

Names: CD5 antigen; Lymphocyte antigen CD5; T-cell surface glycoprotein CD5-like

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_019295.3 → NP_062168.2 T-cell surface glycoprotein CD5 precursor

Status: VALIDATED

Source sequence(s)

JAXUCZ010000001

UniProtKB/Swiss-Prot

P51882, Q63098

UniProtKB/TrEMBL

A0A8L2QP90, A6I055, A6I057

Related

ENSRNOP00000051697.3, ENSRNOT00000054812.5

Conserved Domains (1) summary

smart00202
Location:46 → 143

SR; Scavenger receptor Cys-rich