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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

SLAMF9 Gene

protein-coding   GIFtS: 45
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)
About This Section

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, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000001.10  NC_018912.2  NT_004487.19  
Regulatory elements:
   SABiosciences 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 SABiosciences Chromatin IP Primers for SLAMF9

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays 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 UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: SLAF9_HUMAN, Q96A28 (See protein sequence)
Recommended Name: SLAM family member 9 precursor  
Size: 289 amino acids; 32436 Da
Subcellular location: Membrane; Single-pass type I membrane protein
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 

SLAMF9 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

SLAMF9 Protein Expression

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

ENSEMBL proteins: 
 ENSP00000357071   ENSP00000357072  

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Gene Ontology (GO): 1 cellular component term (GO ID links to tree view):    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0016021integral to membrane IEA--

SLAMF9 for ontologies           About GeneDecksing



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

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

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


SLAMF9 for domains           About GeneDecksing


(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,
bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
About This Section

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 (GO ID links to tree view):    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0004872receptor activity IEA--
GO:0005515protein binding ----
     
SLAMF9 for ontologies           About GeneDecksing


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

SLAMF9 for phenotypes           About GeneDecksing

Animal Models:
     MGI mouse knock-out Slamf9tm1Lex for SLAMF9

   inGenious Targeting Laboratory - Custom generated mouse model solutions for SLAMF9 
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(Pathways according to EMD Millipore, 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 SABiosciences, 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 Oct 2013 via Entrez Gene).
About This Section



Interactions:

    Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SLAMF9

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
About This Section
Browse Small Molecules at EMD Millipore
Browse drugs & compounds from Enzo Life Sciences

Browse Tocris compounds for SLAMF9 (SLAF9)

Search CenterWatch for drugs/clinical trials and news about 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,
Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from EMD Millipore,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
About This Section

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 AF275725 AA298785 AA298784 CD639596 CB528634 AY358801 AA612751 
AA298780 NM_033438 CA418800 BC074754 AA446344 BC070213 AA446524 AY034613 
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™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section

SLAMF9 expression in normal human tissues (normalized intensities)      SLAMF9 embryonic expression: see
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 
 5/5 selected tissues (see all 5) fully expand
 
 Lung (Respiratory System)
         bronchoalveolar lavage cells   
 
 Heart (Cardiovascular System)
         heart/ventricle   
 
 Bone (Muscoskeletal System)
         TGFbeta3+BMP7-induced chondrocytes
 
 Blood (Hematopoietic System)
         bone marrow-derived macrophages   
 
 Cartilage (Muscoskeletal System)
         TGFbeta3+BMP7-induced chondrocytes

See SLAMF9 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for SLAMF9

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

    SABiosciences Custom PCR Arrays for SLAMF9
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In Situ
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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)
About This Section

This gene was present in the common ancestor of chordates.

Orthologs for SLAMF9 gene from 2/8 species (see all 8)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia Slamf91 , 5 SLAM family member 91, 5 72.98(n)1
58.93(a)1
  1 (79.85 cM)5
983651  NM_029612.41  NP_083888.31 
 1724753585 
chicken
(Gallus gallus)
Aves --
--
22(a)
1 → many
25(1223442-1225768)


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)
About This Section
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

SLAMF9 for paralogs           About GeneDecksing


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) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section

10/129 SNPs in SLAMF9 are shown (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

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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
About This Section

SLAMF9 for disorders           About MalaCards
OMIM gene information: 608589    OMIM disorders: --


SLAMF9 for disorders           About GeneDecksing


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)
About This Section

PubMed articles for SLAMF9 gene integrated from 9 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. (2001)
  2. The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)1, 2 Gregory S.G.... Bentley D.R. (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. (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. (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. (2001)
  6. The SLAM and SAP gene families control innate and adaptive immune responses. (PubMed id 18501771)1 Calpe S....Terhorst C. (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. (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. (2002)

(in PubMed, OMIM, and NCBI Bookshelf)
About This Section
 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)
About This Section
Entrez Gene: 89886 HGNC: 18430 AceView: SLAMF9 Ensembl:ENSG00000162723 euGenes: HUgn89886
ECgene: SLAMF9 H-InvDB: SLAMF9

(According to HUGE)
About This Section
  --

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
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.)
About This Section
Patent Information for SLAMF9 gene:
Search GeneIP for patents involving SLAMF9

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
About This Section

 
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 Proteins for SLAMF9
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 inGenious Targeting Laboratory - Custom generated mouse model solutions for SLAMF9
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Customized:
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GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 3 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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