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    Cd6 Cd6 molecule [ Rattus norvegicus (Norway rat) ]

    Gene ID: 25752, updated on 5-Mar-2024

    Summary

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    Symbol
    Cd6provided by RGD
    Full Name
    Cd6 moleculeprovided by RGD
    Primary source
    RGD:2312
    See related
    Ensembl:ENSRNOG00000020884 AllianceGenome:RGD:2312
    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
    OX52
    Summary
    Enables protein kinase binding activity. Involved in positive regulation of protein phosphorylation. Is spanning component of plasma membrane. Orthologous to human CD6 (CD6 molecule). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Thymus (RPKM 500.0) and Spleen (RPKM 74.2) See more
    Orthologs
    human mouse all
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    Genomic context

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    Location:
    1q43
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (216867767..216906642, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (207442873..207481703, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (226848399..226887259, complement)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene Cd5 molecule Neighboring gene uncharacterized LOC120099989 Neighboring gene transfer RNA alanine (anticodon AGC) 22 Neighboring gene solute carrier family 15 member 3 Neighboring gene transmembrane protein 132A Neighboring gene transmembrane protein 109

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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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    Related articles in PubMed

    1. CD6 attenuates early and late signaling events, setting thresholds for T-cell activation. Oliveira MI, et al. Eur J Immunol, 2012 Jan. PMID 21956609, Free PMC Article
    2. CD6 binds to pathogen-associated molecular patterns and protects from LPS-induced septic shock. Sarrias MR, et al. Proc Natl Acad Sci U S A, 2007 Jul 10. PMID 17601777, Free PMC Article
    3. Extracellular isoforms of CD6 generated by alternative splicing regulate targeting of CD6 to the immunological synapse. Castro MA, et al. J Immunol, 2007 Apr 1. PMID 17371992
    4. OX52 is the rat homologue of CD6: evidence for an effector function in the regulation of CD5 phosphorylation. Castro MA, et al. J Leukoc Biol, 2003 Jan. PMID 12525577
    5. Structures of CD6 and Its Ligand CD166 Give Insight into Their Interaction. Chappell PE, et al. Structure, 2015 Aug 4. PMID 26146185, Free PMC Article

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC108551

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables lipopolysaccharide binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables lipoteichoic acid binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein kinase binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in acute inflammatory response to antigenic stimulus ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in immunological synapse formation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in lipopolysaccharide-mediated signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of T cell proliferation ISO
    Inferred from Sequence Orthology
    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 protein phosphorylation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in response to lipopolysaccharide ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of T cell receptor complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cell surface IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in immunological synapse ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    T-cell differentiation antigen CD6
    Names
    CD6 antigen, Tp120
    T-cell differentiation antigen CD6-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)

    1. NM_175577.3 → NP_783167.2  T-cell differentiation antigen CD6 precursor

      See identical proteins and their annotated locations for NP_783167.2

      Status: VALIDATED

      Source sequence(s)
      AF488727, BC089767, CO559874
      UniProtKB/TrEMBL
      A6I060, G3V8U0, Q812A4
      Related
      ENSRNOP00000028347.3, ENSRNOT00000028347.4
      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_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086019.1 Reference GRCr8

      Range
      216867767..216906642 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063282334.1 → XP_063138404.1  T-cell differentiation antigen CD6 isoform X7

    2. XM_008760218.4 → XP_008758440.1  T-cell differentiation antigen CD6 isoform X2

      UniProtKB/TrEMBL
      Q812A4
      Conserved Domains (2) summary
      smart00202
      Location:160 → 259
      SR; Scavenger receptor Cys-rich
      pfam00530
      Location:165 → 259
      SRCR; Scavenger receptor cysteine-rich domain

    3. XM_006231021.5 → XP_006231083.1  T-cell differentiation antigen CD6 isoform X1

      UniProtKB/TrEMBL
      Q812A4
      Conserved Domains (2) summary
      smart00202
      Location:160 → 259
      SR; Scavenger receptor Cys-rich
      pfam00530
      Location:165 → 259
      SRCR; Scavenger receptor cysteine-rich domain

    4. XM_039102303.2 → XP_038958231.1  T-cell differentiation antigen CD6 isoform X4

      UniProtKB/TrEMBL
      Q812A4
      Conserved Domains (1) summary
      smart00202
      Location:160 → 259
      SR; Scavenger receptor Cys-rich

    5. XM_017588836.3 → XP_017444325.1  T-cell differentiation antigen CD6 isoform X3

      UniProtKB/TrEMBL
      Q812A4
      Related
      ENSRNOP00000051694.2

    6. XM_063282341.1 → XP_063138411.1  T-cell differentiation antigen CD6 isoform X8

    7. XM_063282324.1 → XP_063138394.1  T-cell differentiation antigen CD6 isoform X6

    8. XM_008760219.4 → XP_008758441.1  T-cell differentiation antigen CD6 isoform X5

      UniProtKB/TrEMBL
      Q812A4
      Conserved Domains (2) summary
      smart00202
      Location:160 → 259
      SR; Scavenger receptor Cys-rich
      pfam00530
      Location:165 → 259
      SRCR; Scavenger receptor cysteine-rich domain

    9. XM_039102307.2 → XP_038958235.1  T-cell differentiation antigen CD6 isoform X9

      Conserved Domains (1) summary
      smart00202
      Location:5 → 85
      SR; Scavenger receptor Cys-rich
    Nucleotide Protein Strain
    Heading Accession and Version

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