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Cd5 CD5 antigen [ Mus musculus (house mouse) ]

Gene ID: 12507, updated on 23-Jun-2021

Summary

Official Symbol
Cd5provided by MGI
Official Full Name
CD5 antigenprovided by MGI
Primary source
MGI:MGI:88340
See related
Ensembl:ENSMUSG00000024669
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Ly; Ly-; Ly-1; Ly-A; Lyt-; Ly-12; Lyt-1
Expression
Biased expression in thymus adult (RPKM 77.3), spleen adult (RPKM 17.0) and 1 other tissue See more
Orthologs
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Genomic context

See Cd5 in Genome Data Viewer
Location:
19 A; 19 7.16 cM
Exon count:
12
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 19 NC_000085.7 (10695471..10716390, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 19 NC_000085.6 (10718107..10739026, complement)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 19 NC_000085.5 (10792633..10813464, complement)

Chromosome 19 - NC_000085.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 2210404E10 gene Neighboring gene vacuolar protein sorting 37C Neighboring gene RIKEN cDNA A430093F15 gene Neighboring gene CD6 antigen

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables scavenger receptor activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
involved_in T cell costimulation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within T cell costimulation IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within apoptotic signaling pathway IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
located_in external side of plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in integral component of membrane IEA
Inferred from Electronic Annotation
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
PubMed 
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
 
located_in spanning component of plasma membrane ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
T-cell surface glycoprotein CD5
Names
lymphocyte antigen 1

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)

  1. NM_007650.3NP_031676.3  T-cell surface glycoprotein CD5 precursor

    See identical proteins and their annotated locations for NP_031676.3

    Status: VALIDATED

    Source sequence(s)
    AC132247, AI528619, AK143736
    Consensus CDS
    CCDS29586.1
    UniProtKB/Swiss-Prot
    P13379
    UniProtKB/TrEMBL
    Q3UP78
    Related
    ENSMUSP00000025571.8, ENSMUST00000025571.9
    Conserved Domains (2) summary
    smart00202
    Location:34133
    SR; Scavenger receptor Cys-rich
    pfam00530
    Location:168268
    SRCR; Scavenger receptor cysteine-rich domain

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000085.7 Reference GRCm39 C57BL/6J

    Range
    10695471..10716390 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006526621.2XP_006526684.1  T-cell surface glycoprotein CD5 isoform X1

    Related
    ENSMUSP00000158313.2, ENSMUST00000238167.2
    Conserved Domains (1) summary
    smart00202
    Location:34133
    SR; Scavenger receptor Cys-rich
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