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Slamf6 SLAM family member 6 [ Mus musculus (house mouse) ]

Gene ID: 30925, updated on 2-Nov-2024

Summary

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Official Symbol
Slamf6provided by MGI
Official Full Name
SLAM family member 6provided by MGI
Primary source
MGI:MGI:1353620
See related
Ensembl:ENSMUSG00000015314 AllianceGenome:MGI:1353620
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
KAL1; NTBA; KAL1b; Ly108; NTB-A; SF2000
Summary
Involved in natural killer cell differentiation and natural killer cell proliferation. Predicted to be located in plasma membrane. Predicted to be active in external side of plasma membrane. Orthologous to human SLAMF6 (SLAM family member 6). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in thymus adult (RPKM 5.3), spleen adult (RPKM 3.2) and 4 other tissues See more
Orthologs
human all
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Genomic context

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See Slamf6 in Genome Data Viewer
Location:
1 H3; 1 79.54 cM
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (171745002..171776525)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (171917458..171948958)

Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene CD84 antigen Neighboring gene predicted gene, 51686 Neighboring gene STARR-seq mESC enhancer starr_03042 Neighboring gene STARR-seq mESC enhancer starr_03043 Neighboring gene STARR-seq mESC enhancer starr_03044 Neighboring gene predicted gene 52845 Neighboring gene CapStarr-seq enhancer MGSCv37_chr1:173849407-173849647 Neighboring gene STARR-positive B cell enhancer ABC_E3330 Neighboring gene CapStarr-seq enhancer MGSCv37_chr1:173851483-173851687 Neighboring gene predicted gene, 37065 Neighboring gene STARR-seq mESC enhancer starr_03046 Neighboring gene STARR-positive B cell enhancer ABC_E5850 Neighboring gene VISTA enhancer mm1677 Neighboring gene VANGL planar cell polarity 2 Neighboring gene STARR-positive B cell enhancer ABC_E9498 Neighboring gene nescient helix loop helix 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data 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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Related articles in PubMed

  1. Alternative Splicing of the Inhibitory Immune Checkpoint Receptor SLAMF6 Generates a Dominant Positive Form, Boosting T-cell Effector Functions. Hajaj E, et al. Cancer Immunol Res, 2021 Jun. PMID 33762352
  2. SLAMF6​ deficiency augments tumor killing and skews toward an effector phenotype revealing it as a novel T cell checkpoint. Hajaj E, et al. Elife, 2020 Mar 3. PMID 32122464, Free PMC Article
  3. Cutting edge: the SLAM family receptor Ly108 controls T cell and neutrophil functions. Howie D, et al. J Immunol, 2005 May 15. PMID 15879084
  4. Characterization of Ly108-H1 Signaling Reveals Ly108-3 Expression and Additional Strain-Specific Differences in Lupus Prone Mice. Rietdijk S, et al. Int J Mol Sci, 2023 Mar 6. PMID 36902453, Free PMC Article
  5. SAP-regulated T Cell-APC adhesion and ligation-dependent and -independent Ly108-CD3ζ interactions. Chu C, et al. J Immunol, 2014 Oct 15. PMID 25217164

See all (48) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Characterization of Ly108-H1 Signaling Reveals Ly108-3 Expression and Additional Strain-Specific Differences in Lupus Prone Mice.
    Title: Characterization of Ly108-H1 Signaling Reveals Ly108-3 Expression and Additional Strain-Specific Differences in Lupus Prone Mice.
  2. Alternative Splicing of the Inhibitory Immune Checkpoint Receptor SLAMF6 Generates a Dominant Positive Form, Boosting T-cell Effector Functions.
    Title: Alternative Splicing of the Inhibitory Immune Checkpoint Receptor SLAMF6 Generates a Dominant Positive Form, Boosting T-cell Effector Functions.
  3. SLAMF6 deficiency augments tumor killing and skews toward an effector phenotype revealing it as a novel T cell checkpoint.
    Title: SLAMF6​ deficiency augments tumor killing and skews toward an effector phenotype revealing it as a novel T cell checkpoint.
  4. Critical Role for SLAM/SAP Signaling in the Thymic Developmental Programming of IL-17- and IFN-gamma-Producing gammadelta T Cells.
    Title: Critical Role for SLAM/SAP Signaling in the Thymic Developmental Programming of IL-17- and IFN-γ-Producing γδ T Cells.
  5. Authors found that seSLAMF6 reduced activation-induced cell death and had an antiapoptotic effect on tumor-infiltrating lymphocytes.
    Title: Soluble SLAMF6 Receptor Induces Strong CD8(+) T-cell Effector Function and Improves Anti-Melanoma Activity In Vivo.
  6. naive T cells regulate B cell survival in a SLAMF6-dependent manner
    Title: T Cells Regulate Peripheral Naive Mature B Cell Survival by Cell-Cell Contact Mediated through SLAMF6 and SAP.
  7. in addition to its established role in Invariant NKT(iNKT) cell ontogeny, Ly108 regulates iNKT cell function in mice and humans
    Title: Invariant NKT Cell Activation Is Potentiated by Homotypic trans-Ly108 Interactions.
  8. CRISPR-Mediated Slamf1Delta/Delta Slamf5Delta/Delta Slamf6Delta/Delta Triple Gene Disruption Reveals NKT Cell Defects but Not T Follicular Helper Cell Defects.
    Title: CRISPR-Mediated Slamf1Δ/Δ Slamf5Δ/Δ Slamf6Δ/Δ Triple Gene Disruption Reveals NKT Cell Defects but Not T Follicular Helper Cell Defects.
  9. In addition to their role in NK cell activation by hematopoietic cells, the SLAM-SAP-SHP1 pathways influence responsiveness toward nonhematopoietic targets by a process akin to NK cell 'education'.
    Title: A hematopoietic cell-driven mechanism involving SLAMF6 receptor, SAP adaptors and SHP-1 phosphatase regulates NK cell education.
  10. study establishes a central role for germinal center B cell-specific CD84 and Ly108 expression in maintaining B cell tolerance in germinal centers and in preventing autoimmunity
    Title: B cell-intrinsic CD84 and Ly108 maintain germinal center B cell tolerance.
Submit: New GeneRIF Correction See all GeneRIFs (23)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (2) 
  • Targeted (6)  1 citation

Pathways from PubChem

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General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Process Evidence Code Pubs
involved_in T cell activation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in T-helper 17 cell lineage commitment ISO
Inferred from Sequence Orthology
more info
  
involved_in adaptive immune response IEA
Inferred from Electronic Annotation
more info
  
involved_in immune response IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in innate immune response IEA
Inferred from Electronic Annotation
more info
  
involved_in natural killer cell differentiation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in natural killer cell proliferation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of interleukin-17 production ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of natural killer cell mediated cytotoxicity ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of type II interferon production ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in external side of plasma membrane IBA
Inferred from Biological aspect of Ancestor
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
 PubMed 

General protein information

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Preferred Names
SLAM family member 6
Names
lymphocyte antigen 108

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_001347186.1 → NP_001334115.1  SLAM family member 6 isoform 2 precursor

    Status: VALIDATED

    Source sequence(s)
    AC091523, BC030031
    Consensus CDS
    CCDS83638.1
    UniProtKB/Swiss-Prot
    C6ESQ1, Q9ET39, Q9ET40
    UniProtKB/TrEMBL
    Q18PJ0, Q18PJ2
    Related
    ENSMUSP00000141448.2, ENSMUST00000195656.6

  2. NM_001347187.1 → NP_001334116.1  SLAM family member 6 isoform 3 precursor

    Status: VALIDATED

    Source sequence(s)
    AC091523, EU591721
    Consensus CDS
    CCDS83639.1
    UniProtKB/TrEMBL
    Q18PJ2
    Related
    ENSMUSP00000141944.2, ENSMUST00000194561.2

  3. NM_030710.3 → NP_109635.1  SLAM family member 6 isoform 1 precursor

    See identical proteins and their annotated locations for NP_109635.1

    Status: VALIDATED

    Source sequence(s)
    AC091523
    Consensus CDS
    CCDS15504.1
    UniProtKB/TrEMBL
    Q18PG5, Q18PJ2
    Related
    ENSMUSP00000130610.2, ENSMUST00000171330.7
    Conserved Domains (1) summary
    cl11960
    Location:44 → 142
    Ig; Immunoglobulin 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

  1. NC_000067.7 Reference GRCm39 C57BL/6J

    Range
    171745002..171776525
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006496884.5 → XP_006496947.1  SLAM family member 6 isoform X1

    UniProtKB/TrEMBL
    Q18PJ2
    Conserved Domains (1) summary
    cl11960
    Location:44 → 142
    Ig; Immunoglobulin domain

  2. XM_006496886.5 → XP_006496949.1  SLAM family member 6 isoform X2

    UniProtKB/TrEMBL
    Q18PJ2
    Conserved Domains (1) summary
    cl11960
    Location:25 → 123
    Ig; Immunoglobulin domain

  3. XM_011238825.3 → XP_011237127.1  SLAM family member 6 isoform X3

RNA

  1. XR_373611.5 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9ET39.1 GenPept UniProtKB/Swiss-Prot:Q9ET39

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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