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SLAMF9 Gene

protein-coding   GIFtS: 46
GCID: GC01M159923

SLAM Family Member 9

  Search for SLAMF9
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
SLAM Family Member 91 2     CD84H12
CD2F-102 3     SF20012
CD2F102 3     Cluster Of Differentiation 2 Antigen Family Member 102
CD84-H12 3     Cluster Of Differentiation 84 Homolog 12
CD2 Family Member 102 3     Signaling Lymphocytic Activation Molecule Family Member 20012
CD84 Homolog 12 3     Signaling Lymphocytic Activation Molecule Family Member 92

External Ids:    HGNC: 184301   Entrez Gene: 898862   Ensembl: ENSG000001627237   OMIM: 6085895   UniProtKB: Q96A283   

Export aliases for SLAMF9 gene to outside databases

Previous GC identifers: GC01M157138 GC01M156734 GC01M158187 GC01M131277


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for SLAMF9 Gene:
This gene encodes a member of the signaling lymphocytic activation molecule family. The encoded protein is a cell
surface molecule that consists of two extracellular immunoglobulin domains, a transmembrane domain and a short
cytoplasmic tail that lacks the signal transduction motifs found in other family members. Alternative splicing
results in multiple transcript variants.(provided by RefSeq, Apr 2009)

GeneCards Summary for SLAMF9 Gene:
SLAMF9 (SLAM family member 9) is a protein-coding gene. GO annotations related to this gene include receptor activity. An important paralog of this gene is SLAMF7.

UniProtKB/Swiss-Prot: SLAF9_HUMAN, Q96A28
Function: May play a role in the immune response




(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000001.10  NC_018912.2  NT_004487.20  
Regulatory elements:
   Regulatory transcription factor binding sites in the SLAMF9 gene promoter:
         Sox5   LHX3b/Lhx3b   AML1a   HNF-3beta   Arnt   Nkx6-1   USF-1   LHX3a/Lhx3a   RSRFC4   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSLAMF9 promoter sequence
   Search Chromatin IP Primers for SLAMF9

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SLAMF9


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 1q23.2   Ensembl cytogenetic band:  1q23.2   HGNC cytogenetic band: 1q23.1

SLAMF9 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SLAMF9 gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01M159923:  view genomic region     (about GC identifiers)

Start:
159,921,282 bp from pter      End:
159,924,044 bp from pter
Size:
2,763 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: SLAF9_HUMAN, Q96A28 (See protein sequence)
Recommended Name: SLAM family member 9 precursor  
Size: 289 amino acids; 32436 Da
Secondary accessions: Q5JRQ9 Q5JRR0 Q6UWG1
Alternative splicing: 2 isoforms:  Q96A28-1   Q96A28-2   

Explore the universe of human proteins at neXtProt for SLAMF9: NX_Q96A28

Explore proteomics data for SLAMF9 at MOPED

Post-translational modifications: 

  • Glycosylation2 at Asn99, Asn208

  • See SLAMF9 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (3 alternative transcripts): 
    NP_001139644.1  NP_001139645.1  NP_254273.2  

    ENSEMBL proteins: 
     ENSP00000357071   ENSP00000357072  

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    HGNC Gene Families:
    VSET: Immunoglobulin superfamily / V-set domain containing

    5 InterPro protein domains:
     IPR015631 SLAM_fam_rcpts
     IPR013783 Ig-like_fold
     IPR013106 Ig_V-set
     IPR007110 Ig-like_dom
     IPR003599 Ig_sub

    Graphical View of Domain Structure for InterPro Entry Q96A28

    ProtoNet protein and cluster: Q96A28

    1 Blocks protein domain: IPB003599 Immunoglobulin subtype

    UniProtKB/Swiss-Prot: SLAF9_HUMAN, Q96A28
    Similarity: Contains 1 Ig-like C2-type (immunoglobulin-like) domain


    Find genes that share domains with SLAMF9           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: SLAF9_HUMAN, Q96A28
    Function: May play a role in the immune response

         Gene Ontology (GO): 2 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0004872receptor activity IEA--
    GO:0005515protein binding ----
         
    Find genes that share ontologies with SLAMF9           About GenesLikeMe


    Phenotypes:
         1 MGI phenotypic allele for Slamf9 (no phenotypes)

    Find genes that share phenotypes with SLAMF9           About GenesLikeMe

    Animal Models:
         MGI mouse knock-out Slamf9tm1Lex for SLAMF9

       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for SLAMF9
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    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    SLAF9_HUMAN, Q96A28: Membrane; Single-pass type I membrane protein
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    plasma membrane3
    extracellular2
    cytosol1
    endoplasmic reticulum1
    nucleus1
    peroxisome1

    Gene Ontology (GO): 1 cellular component term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0016021integral component of membrane IEA--

    Find genes that share ontologies with SLAMF9           About GenesLikeMe


    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for SLAMF9
    Interactions:

        Search GeneGlobe Interaction Network for SLAMF9

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for SLAMF9 (SLAF9)



    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for SLAMF9 gene (3 alternative transcripts): 
    NM_001146172.1  NM_001146173.1  NM_033438.3  

    Unigene Cluster for SLAMF9:

    SLAM family member 9
    Hs.661712  [show with all ESTs]
    Unigene Representative Sequence: NM_033438
    4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000466773 ENST00000489098 ENST00000368092 ENST00000368093(uc001fus.3 uc009wtd.3 uc001fut.3)

    miRNA
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    Additional mRNA sequence: 

    AF275725.1 AY034613.1 AY358801.1 BC070213.1 BC074754.2 

    2 DOTS entries:

    DT.444124  DT.95310123 

    18 AceView cDNA sequences:

    AA298781 CA418800 BC070213 CD639596 NM_033438 CB528634 BC074754 AY358801 
    AA446344 AF275725 AA298780 AA298785 AA298784 AA612751 AY034613 AA446524 
    BX280679 AA381170 

    GeneLoc Exon Structure

    3 Alternative Splicing Database (ASD) splice patterns (SP) for SLAMF9    About this scheme

    ExUns: 1a · 1b · 1c ^ 2a · 2b ^ 3 ^ 4a · 4b · 4c
    SP1:                                                      
    SP2:                                -                     
    SP3:                          -     -                     


    ECgene alternative splicing isoforms for SLAMF9

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    SLAMF9 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: AGAAACAGAA
    SLAMF9 Expression
    About this image


    SLAMF9 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 3) fully expand
     
     Bone (Muscoskeletal System)
             TGFbeta3+BMP7-induced chondrocytes
     
     Cartilage (Muscoskeletal System)
             TGFbeta3+BMP7-induced chondrocytes
     
     Lung (Respiratory System)
    SLAMF9 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    SLAMF9 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.661712

    UniProtKB/Swiss-Prot: SLAF9_HUMAN, Q96A28
    Tissue specificity: Expression is predominantly restricted in hematopoietic tissues. Expressed in heart, spleen,
    liver, intestine, muscle and testis. Expressed in immune cells, including monocytes, dendritic, B- and T-cells.
    No expression was seen in peripheral blood leukocytes. Expressed in the leukocyte cell line THP-1

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    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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    This gene was present in the common ancestor of human and mouse.

    Orthologs for SLAMF9 gene from Selected species (see all 7)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Slamf91 , 5 SLAM family member 91, 5 74.74(n)1
    60(a)1
      1 (79.85 cM)5
    983651  NM_029612.41  NP_083888.31 
     1724753585 


    ENSEMBL Gene Tree for SLAMF9 (if available)
    TreeFam Gene Tree for SLAMF9 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for SLAMF9 gene
    SLAMF72  SLAMF62  CD842  LY92  
    3 SIMAP similar genes for SLAMF9 using alignment to 2 protein entries:     SLAF9_HUMAN (see all proteins):
    LY9    SLAMF7    CD84

    Find genes that share paralogs with SLAMF9           About GenesLikeMe


    2 Pseudogenes.org Pseudogenes for SLAMF9
    PGOHUM00000244308 PGOHUM00000244309


    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for SLAMF9 (see all 129)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 1 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1177451001,2
    F--159920800(+) GAGAGG/ATTGCG 3 -- ds50011Minor allele frequency- A:0.02EA 120
    rs27894191,2
    C,F,A,H--159920826(-) GACCTT/ACCCTG 3 -- ds500111Minor allele frequency- A:0.39NS EA NA WA 784
    rs1379921731,2
    --159920873(+) CTTCTA/GGACTA 3 -- ds50010--------
    rs1495043631,2
    --159921050(+) CTTATC/TTGATG 3 -- ds50010--------
    rs1840058671,2
    --159921299(+) AATTTA/GACTTT 3 -- ut310--------
    rs1481103951,2
    --159921319(+) CAGTCC/TTCCCT 3 -- ut310--------
    rs1419147071,2
    C--159921420(+) GAAACC/TAAGCT 3 -- ut310--------
    rs1895270681,2
    C--159921445(+) CCAAGA/GAGCAG 3 -- ut310--------
    rs1472324151,2
    C--159921536(+) TGTGTA/CTTTTC 5 R I mis1 ut310--------
    rs1469344181,2
    C,F--159921537(+) GTGTCT/GTTTCT 5 /R syn1 ut312Minor allele frequency- G:0.00NA EU 5875

    HapMap Linkage Disequilibrium report for SLAMF9 (159921282 - 159924044 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 3 variations for SLAMF9:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv520773CNV Loss19592680
    nsv872489CNV Loss21882294
    nsv524006CNV Gain19592680

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing SLAMF9
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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 608589    OMIM disorders: --


    Find genes that share disorders with SLAMF9           About GenesLikeMe


    Export disorders for SLAMF9 gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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    PubMed articles for SLAMF9 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with SLAMF9)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. CD2F-10: a new member of the CD2 subset of the immunoglobulin superfamily. (PubMed id 11685473)1, 2, 3 Fennelly J.A.... Evans E.J. (Immunogenetics 2001)
    2. The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)1, 2 Gregory S.G.... Bentley D.R. (Nature 2006)
    3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S.... Malek J. (Genome Res. 2004)
    4. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PubMed id 12975309)1, 2 Clark H.F.... Gray A.M. (Genome Res. 2003)
    5. Genetic approach to insight into the immunobiology of human dendritic cells and identification of CD84-H1, a novel CD84 homologue. (PubMed id 11300479)1, 2 Zhang W.... Cao X. (Clin. Cancer Res. Suppl. 2001)
    6. The SLAM and SAP gene families control innate and adaptive immune responses. (PubMed id 18501771)1 Calpe S....Terhorst C. (Adv. Immunol. 2008)
    7. Identification and characterization of SF2000 and SF2001, two new members of the immune receptor SLAM/CD2 family. (PubMed id 11862385)1 Fraser C.C....Terhorst C. (Immunogenetics 2002)
    8. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 89886 HGNC: 18430 AceView: SLAMF9 Ensembl:ENSG00000162723 euGenes: HUgn89886
    ECgene: SLAMF9 H-InvDB: SLAMF9

    (According to HUGE)
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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for SLAMF9 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for SLAMF9 gene:
    Search GeneIP for patents involving SLAMF9

    GeneCards and IP:
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