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SIRPB2 Gene

protein-coding   GIFtS: 39
GCID: GC20M001451

Signal-Regulatory Protein Beta 2

(Previous names: protein tyrosine phosphatase, non-receptor type 1-like,...)
(Previous symbols: PTPN1L, PTPNS1L3)
  Search for SIRPB2
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
Signal-Regulatory Protein Beta 21 2     SIRP-beta-22 3
PTPN1L1 2 3     Protein Tyrosine Phosphatase, Non-Receptor Type 1-Like1
PTPNS1L31 2 3     dJ776F14.22
Protein Tyrosine Phosphatase, Non-Receptor Type Substrate 1-Like 31 2     Signal-Regulatory Protein Beta-22
Protein Tyrosine Phosphatase Non-Receptor Type Substrate 1-Like 32 3     SIRPG5
Protein Tyrosine Phosphatase Non-Receptor Type Substrate Protein2 3     

External Ids:    HGNC: 162471   Entrez Gene: 2847592   Ensembl: ENSG000001962097   OMIM: 6054665   UniProtKB: Q5JXA93   

Export aliases for SIRPB2 gene to outside databases

Previous GC identifers: GC20M001597 GC20M001604 GC20M001557 GC20M001400


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for SIRPB2 Gene:
SIRPB2 (signal-regulatory protein beta 2) is a protein-coding gene. An important paralog of this gene is SIRPD.


(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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Regulatory elements:
   Search for regulatory transcription factor binding sites for SIRPB2
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSIRPB2 promoter sequence
   Search Chromatin IP Primers for SIRPB2

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SIRPB2


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

Entrez Gene cytogenetic band: 20p13   Ensembl cytogenetic band:  20p13   HGNC cytogenetic band: 20p13

SIRPB2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SIRPB2 gene location

GeneLoc information about chromosome 20         GeneLoc Exon Structure

GeneLoc location for GC20M001451:  view genomic region     (about GC identifiers)

Start:
1,451,386 bp from pter      End:
1,472,233 bp from pter
Size:
20,848 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: SIRB2_HUMAN, Q5JXA9 (See protein sequence)
Recommended Name: Signal-regulatory protein beta-2 precursor  
Size: 342 amino acids; 36968 Da
Secondary accessions: B4DLM9 E9PCW6 Q6TCH9
Alternative splicing: 3 isoforms:  Q5JXA9-1   Q5JXA9-2   Q5JXA9-3   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for SIRPB2: NX_Q5JXA9

Explore proteomics data for SIRPB2 at MOPED

Post-translational modifications: 

  • Glycosylation2 at Asn116, Asn179, Asn231

  • See SIRPB2 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (2 alternative transcripts): 
    NP_001116434.1  NP_001128308.1  

    ENSEMBL proteins: 
     ENSP00000432656   ENSP00000435045   ENSP00000352849   ENSP00000402438   ENSP00000477149  
     ENSP00000445632  

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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:
    SIRP: Signal-regulatory proteins
    VSET: Immunoglobulin superfamily / V-set domain containing

    4 InterPro protein domains:
     IPR013783 Ig-like_fold
     IPR013106 Ig_V-set
     IPR007110 Ig-like_dom
     IPR003599 Ig_sub

    Graphical View of Domain Structure for InterPro Entry Q5JXA9

    ProtoNet protein and cluster: Q5JXA9

    UniProtKB/Swiss-Prot: SIRB2_HUMAN, Q5JXA9
    Similarity: Contains 2 Ig-like V-type (immunoglobulin-like) domains


    Find genes that share domains with SIRPB2           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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         Gene Ontology (GO): 1 molecular function term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515protein binding ----
         
    Find genes that share ontologies with SIRPB2           About GenesLikeMe


    Phenotypes:
         1 GenomeRNAi human phenotype for SIRPB2:
     Increased G1 DNA content 

    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for SIRPB2
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    hsa-miR-28-3p hsa-miR-3934 hsa-miR-492 hsa-miR-149 hsa-miR-1301 hsa-miR-548u hsa-miR-664*
    SwitchGear 3'UTR luciferase reporter plasmidSIRPB2 3' UTR sequence
    Inhib. RNA
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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
    SIRB2_HUMAN, Q5JXA9: Membrane; Single-pass type I membrane protein (Potential)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    plasma membrane3

    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 SIRPB2           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 SIRPB2
    Interactions:

        Search GeneGlobe Interaction Network for SIRPB2

    (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 SIRPB2 (SIRB2)



    (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 SIRPB2 gene (2 alternative transcripts): 
    NM_001122962.1  NM_001134836.1  

    9 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000481731 ENST00000486775 ENST00000359801(uc002wfg.2) ENST00000444444(uc002wfh.3)
    ENST00000381630 ENST00000608747 ENST00000608073 ENST00000609796 ENST00000537284(uc010zpr.1)

    miRNA
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    7 qRT-PCR Assays for microRNAs that regulate SIRPB2:
    hsa-miR-28-3p hsa-miR-3934 hsa-miR-492 hsa-miR-149 hsa-miR-1301 hsa-miR-548u hsa-miR-664*
    SwitchGear 3'UTR luciferase reporter plasmidSIRPB2 3' UTR sequence
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat SIRPB2
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    Primer
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      QuantiFast Probe-based Assays in human, mouse, rat SIRPB2

    19 AceView cDNA sequences:

    BM280286 AW473927 BX417137 BM280366 BG539998 AK095499 AY424277 BM280291 
    AL844283 BQ635335 BM285394 AL844323 AK097113 AL732097 AL844285 BF836038 
    BF838298 AL732098 BI023360 

    GeneLoc Exon Structure

    4 Alternative Splicing Database (ASD) splice patterns (SP) for SIRPB2    About this scheme

    ExUns: 1a · 1b · 1c ^ 2 ^ 3a · 3b · 3c ^ 4a · 4b ^ 5 ^ 6 ^ 7a · 7b ^ 8a · 8b
    SP1:                    -                                               -                     
    SP2:                    -                                                                     
    SP3:                    -           -     -                                                   
    SP4:                                      -                                                   


    ECgene alternative splicing isoforms for SIRPB2

    (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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    SIRPB2 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    SIRPB2 Expression
    About this image

    SIRPB2 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    SIRPB2 Protein Expression
        Custom PCR Arrays for SIRPB2
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SIRPB2

    (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 chordates.

    Orthologs for SIRPB2 gene from Selected species (see all 7)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Gm51505 predicted gene 5150   --   3 (3.91 cM) 15948070 
    chicken
    (Gallus gallus)
    Aves --
    --
    (see all 3)
    Uncharacterized protein
    (see all 3)
    20(a)
    16(a)
    (see all 3)
    1 ↔ many
    1 ↔ many
    (see all 3)
    AADN03010873.1(4194-6264)
    AADN03010873.1(3381-8631)
    lizard
    (Anolis carolinensis)
    Reptilia --
    --
    (see all 3)
    Uncharacterized protein
    (see all 3)
    19(a)
    13(a)
    (see all 3)
    1 ↔ many
    1 ↔ many
    (see all 3)
    GL343515.1(68482-79147)
    GL343515.1(81225-91211)


    ENSEMBL Gene Tree for SIRPB2 (if available)
    TreeFam Gene Tree for SIRPB2 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for SIRPB2 gene
    SIRPD2  SIRPB12  SIRPG2  SIRPA2  ENSG000002608612  
    2 SIMAP similar genes for SIRPB2 using alignment to 4 protein entries:     SIRB2_HUMAN (see all proteins):
    SIRPB1    SIRPD

    Find genes that share paralogs with SIRPB2           About GenesLikeMe



    (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 SIRPB2 (see all 527)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 20 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1404204371,2
    --1454821(+) CCCCAG/TCTCAA 2 -- ds50010--------
    rs1869948731,2
    --1454877(+) TTTTTA/CTTTTT 2 -- ds50010--------
    rs60792621,2
    H--1454969(+) taccTT/CCCCTA 2 -- ds50014Minor allele frequency- C:0.00NS EA 390
    rs1910728711,2
    --1455036(+) TTGTCC/GCTGGC 2 -- ds50010--------
    rs1442918501,2
    --1455154(+) TTTACA/GTGTAT 2 -- ds50010--------
    rs9658051,2
    C,A--1455168(+) GTGCAC/TGCAGT 2 -- ds500112Minor allele frequency- T:0.05NA WA CSA EA 374
    rs1829187311,2
    --1455178(+) TGCACA/CCAGCA 2 -- ds50010--------
    rs764351451,2
    C,F--1455205(+) TAAATG/ACAGAA 2 -- ds50011Minor allele frequency- A:0.03WA 118
    rs1875953571,2
    C--1455321(+) CAAGCA/GGTTCT 2 -- ut310--------
    rs1907564581,2
    --1455353(+) GCTGGA/GATTAC 2 -- ut310--------

    HapMap Linkage Disequilibrium report for SIRPB2 (1451386 - 1472233 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 3 variations for SIRPB2:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv3252CNV Insertion18451855
    nsv833893CNV Loss17160897
    nsv522008CNV Gain19592680

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing SIRPB2
    DNA2.0 Custom Variant and Variant Library Synthesis for SIRPB2

    (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: 605466    OMIM disorders: --


    Find genes that share disorders with SIRPB2           About GenesLikeMe

    Genetic Association Database (GAD): SIRPB2

    Export disorders for SIRPB2 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 SIRPB2 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with SIRPB2)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. A nomenclature for signal regulatory protein family members. (PubMed id 16339511)1, 3 van den Berg T.K....Barclay A.N. (J. Immunol. 2005)
    2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (Nat. Genet. 2004)
    3. Genome-wide and gene-centric analyses of circulating myeloperoxidase levels in the charge and care consortia. (PubMed id 23620142)1 Reiner A.P....Allayee H. (Hum. Mol. Genet. 2013)
    4. Ataxia telangiectasia mutated down-regulates phospho-extracellular signal-regulated kinase 1/2 via activation of MKP-1 in response to radiation. (PubMed id 17178844)1 Nyati M.K....Lawrence T.S. (Cancer Res. 2006)
    5. Identifying novel transcripts and novel genes in the human genome by using novel SAGE tags. (PubMed id 12213963)1 Chen J....Wang S.M. (Proc. Natl. Acad. Sci. U.S.A. 2002)
    6. The DNA sequence and comparative analysis of human chromosome 20. (PubMed id 11780052)2 Deloukas P....Rogers J. (Nature 2001)
    7. (PubMed id )2 

    (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: 284759 HGNC: 16247 AceView: PTPNS1L3 Ensembl:ENSG00000196209 euGenes: HUgn284759
    ECgene: SIRPB2 H-InvDB: SIRPB2

    (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 SIRPB2 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 SIRPB2 gene:
    Search GeneIP for patents involving SIRPB2

    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, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, eBioscience, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
    About This Section

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