Cd6 CD6 antigen [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Cd6provided by MGI
Official Full Name: CD6 antigenprovided by MGI
Primary source: MGI:MGI:103566
See related: Ensembl:ENSMUSG00000024670 AllianceGenome:MGI:103566
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
Summary: Predicted to enable several functions, including identical protein binding activity; lipopolysaccharide binding activity; and lipoteichoic acid binding activity. Predicted to be involved in several processes, including heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules; lipopolysaccharide-mediated signaling pathway; and positive regulation of macromolecule metabolic process. Predicted to be located in cell surface and immunological synapse. Predicted to be part of T cell receptor complex. Orthologous to human CD6 (CD6 molecule). [provided by Alliance of Genome Resources, Jul 2025]
Expression: Biased expression in thymus adult (RPKM 87.0), spleen adult (RPKM 18.0) and 1 other tissue See more
Orthologs: all
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Genomic context

Location:: 19 A; 19 7.16 cM

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	19	NC_000085.7 (10766703..10807427, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	19	NC_000085.6 (10789339..10830062, complement)

Chromosome 19 - NC_000085.7 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: 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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

The CD6/ALCAM pathway promotes lupus nephritis via T cell-mediated responses.
Title: The CD6/ALCAM pathway promotes lupus nephritis via T cell-mediated responses.
Attenuation of Murine Collagen-Induced Arthritis by Targeting CD6.
Title: Attenuation of Murine Collagen-Induced Arthritis by Targeting CD6.
these results provide new supportive evidence of the contribution of the CD6 lymphocyte receptor in psoriasis at both experimental and clinical levels.
Title: Genetic and experimental evidence for the involvement of the CD6 lymphocyte receptor in psoriasis.
Binding studies show that both soluble and membrane-bound forms of CD5 and CD6 bind to intact viable protoscoleces from E. granulosus s.l. through recognition of metaperiodate-resistant tegumental components.
Title: The ectodomains of the lymphocyte scavenger receptors CD5 and CD6 interact with tegumental antigens from Echinococcus granulosus sensu lato and protect mice against secondary cystic echinococcosis.
Results indicate Cdcp1 (CD318) as a ligand of T-cell differentiation antigen CD6 (CD6) and a potential target for the diagnosis and treatment of autoimmune diseases.
Title: CD318 is a ligand for CD6.
These results suggest that (i) CD6 is a negative regulator of T-cell activation, (ii) at the same time, CD6 is a positive regulator of activated T-cell survival/proliferation and infiltration; and (iii) CD6 is a potential new target for treating multiple sclerosis (MS)and potentially other T-cell-driven autoimmune conditions.
Title: CD6 as a potential target for treating multiple sclerosis.
these data indicate that CD6 modulates the threshold for thymocyte selection and the generation and/or function of several peripheral T cell subpopulations, including T reg cells
Title: CD6 modulates thymocyte selection and peripheral T cell homeostasis.
results reveal an unexpected role of CD6 in the pathogenesis of intestinal IR-induced injury by regulating the self-renewal of B1a cells.
Title: CD6 Receptor Regulates Intestinal Ischemia/Reperfusion-induced Injury by Modulating Natural IgM-producing B1a Cell Self-renewal.
this analysis identified 65 proteins not associated before with the Zap70-Lat-SLP-76 network and thus should provide cues for future functional experiments.
Title: Quantitative proteomics analysis of signalosome dynamics in primary T cells identifies the surface receptor CD6 as a Lat adaptor-independent TCR signaling hub.

Submit: New GeneRIF Correction

Variation

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Alleles

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

Endonuclease-mediated (6) 1 citation
Targeted (2) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables identical protein binding	IEA Inferred from Electronic Annotation more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables lipopolysaccharide binding	IEA Inferred from Electronic Annotation more info
enables lipopolysaccharide binding	ISO Inferred from Sequence Orthology more info
enables lipopolysaccharide binding	ISS Inferred from Sequence or Structural Similarity more info
enables lipoteichoic acid binding	IEA Inferred from Electronic Annotation more info
enables lipoteichoic acid binding	ISO Inferred from Sequence Orthology more info
enables lipoteichoic acid binding	ISS Inferred from Sequence or Structural Similarity more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein kinase binding	IEA Inferred from Electronic Annotation more info
enables protein kinase binding	ISO Inferred from Sequence Orthology more info
enables scavenger receptor activity	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in acute inflammatory response to antigenic stimulus	IEA Inferred from Electronic Annotation more info
involved_in acute inflammatory response to antigenic stimulus	ISO Inferred from Sequence Orthology more info
involved_in acute inflammatory response to antigenic stimulus	ISS Inferred from Sequence or Structural Similarity more info
involved_in heterophilic cell-cell adhesion	IBA Inferred from Biological aspect of Ancestor more info
involved_in heterophilic cell-cell adhesion	IEA Inferred from Electronic Annotation more info
involved_in heterophilic cell-cell adhesion	ISO Inferred from Sequence Orthology more info
involved_in heterophilic cell-cell adhesion	ISS Inferred from Sequence or Structural Similarity more info
involved_in immunological synapse formation	IEA Inferred from Electronic Annotation more info
involved_in immunological synapse formation	ISO Inferred from Sequence Orthology more info
involved_in immunological synapse formation	ISS Inferred from Sequence or Structural Similarity more info
involved_in lipopolysaccharide-mediated signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in lipopolysaccharide-mediated signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in lipopolysaccharide-mediated signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in lipopolysaccharide-mediated signaling pathway	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of T cell proliferation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of T cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of T cell proliferation	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of cytokine production involved in inflammatory response	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of cytokine production involved in inflammatory response	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cytokine production involved in inflammatory response	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of protein phosphorylation	ISO Inferred from Sequence Orthology more info
involved_in response to lipopolysaccharide	IEA Inferred from Electronic Annotation more info
involved_in response to lipopolysaccharide	ISO Inferred from Sequence Orthology more info
involved_in response to lipopolysaccharide	ISS Inferred from Sequence or Structural Similarity more info
involved_in vesicle-mediated transport	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
colocalizes_with T cell receptor complex	IEA Inferred from Electronic Annotation more info
colocalizes_with T cell receptor complex	ISO Inferred from Sequence Orthology more info
colocalizes_with T cell receptor complex	ISS Inferred from Sequence or Structural Similarity more info
located_in cell surface	IEA Inferred from Electronic Annotation more info
located_in cell surface	ISO Inferred from Sequence Orthology more info
located_in extracellular region	ISO Inferred from Sequence Orthology more info
located_in immunological synapse	IEA Inferred from Electronic Annotation more info
located_in immunological synapse	ISO Inferred from Sequence Orthology more info
located_in immunological synapse	ISS Inferred from Sequence or Structural Similarity more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	EXP Inferred from Experiment more info	PubMed
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: T-cell differentiation antigen CD6

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_001037801.2 → NP_001032890.1 T-cell differentiation antigen CD6 isoform 1 precursor

See identical proteins and their annotated locations for NP_001032890.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) lacks an in-frame segment in the coding region, compared to variant 2. The resulting protein (isoform 1) is shorter when it is compared to isoform 2.

Source sequence(s)

AK030823, BQ553341

Consensus CDS

CCDS50391.1

UniProtKB/TrEMBL

Q8BJC2

Related

ENSMUSP00000046861.9, ENSMUST00000039043.15

Conserved Domains (2) summary

smart00202
Location:160 → 259

SR; Scavenger receptor Cys-rich

pfam00530
Location:165 → 259

SRCR; Scavenger receptor cysteine-rich domain
NM_009852.3 → NP_033982.3 T-cell differentiation antigen CD6 isoform 2 precursor

See identical proteins and their annotated locations for NP_033982.3

Status: VALIDATED

Description

Transcript Variant: This variant (2) represents the longer transcript and encodes the longer protein (isoform 2).

Source sequence(s)

AK030823, BQ553341

Consensus CDS

CCDS37917.1

UniProtKB/Swiss-Prot

Q60679, Q61003, Q61004, Q8BGK1

UniProtKB/TrEMBL

Q91WN5

Related

ENSMUSP00000079172.6, ENSMUST00000080292.12

Conserved Domains (2) summary

smart00202
Location:160 → 259

SR; Scavenger receptor Cys-rich

pfam00530
Location:165 → 259

SRCR; Scavenger receptor cysteine-rich domain

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000085.7 Reference GRCm39 C57BL/6J

Range

10766703..10807427 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_036161415.1 → XP_036017308.1 T-cell differentiation antigen CD6 isoform X2

UniProtKB/TrEMBL

Q8BJC2

Conserved Domains (1) summary

smart00202
Location:160 → 259

SR; Scavenger receptor Cys-rich
XM_006526622.3 → XP_006526685.1 T-cell differentiation antigen CD6 isoform X1

UniProtKB/TrEMBL

Q91WN5

Conserved Domains (1) summary

smart00202
Location:160 → 259

SR; Scavenger receptor Cys-rich