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SIRPB1 signal regulatory protein beta 1 [ Homo sapiens (human) ]

Gene ID: 10326, updated on 31-Mar-2024

Summary

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Official Symbol
SIRPB1provided by HGNC
Official Full Name
signal regulatory protein beta 1provided by HGNC
Primary source
HGNC:HGNC:15928
See related
Ensembl:ENSG00000101307 MIM:603889; AllianceGenome:HGNC:15928
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
CD172b; SIRP-BETA-1
Summary
The protein encoded by this gene is a member of the signal-regulatory-protein (SIRP) family, and also belongs to the immunoglobulin superfamily. SIRP family members are receptor-type transmembrane glycoproteins known to be involved in the negative regulation of receptor tyrosine kinase-coupled signaling processes. This protein was found to interact with TYROBP/DAP12, a protein bearing immunoreceptor tyrosine-based activation motifs. This protein was also reported to participate in the recruitment of tyrosine kinase SYK. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Feb 2009]
Expression
Broad expression in appendix (RPKM 6.6), bone marrow (RPKM 6.0) and 22 other tissues See more
Orthologs
all
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Genomic context

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See SIRPB1 in Genome Data Viewer
Location:
20p13
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 20 NC_000020.11 (1561385..1620009, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 20 NC_060944.1 (1610569..1636143, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (1542031..1600655, complement)

Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105372499 Neighboring gene RNA, U6 small nuclear 917, pseudogene Neighboring gene signal regulatory protein delta Neighboring gene uncharacterized LOC107985409 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:1615736-1616561 Neighboring gene SIRPG antisense RNA 1 Neighboring gene signal regulatory protein gamma Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17458 Neighboring gene RNA, 7SL, cytoplasmic 561, pseudogene

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. SIRPB1 copy-number polymorphism as candidate quantitative trait locus for impulsive-disinhibited personality. Laplana M, et al. Genes Brain Behav, 2014 Sep. PMID 25039969
  2. SIRPbeta1 is expressed as a disulfide-linked homodimer in leukocytes and positively regulates neutrophil transepithelial migration. Liu Y, et al. J Biol Chem, 2005 Oct 28. PMID 16081415
  3. Signal regulatory protein-beta1: a microglial modulator of phagocytosis in Alzheimer's disease. Gaikwad S, et al. Am J Pathol, 2009 Dec. PMID 19893026, Free PMC Article
  4. Deletions in Genes Participating in Innate Immune Response Modify the Clinical Course of Andes Orthohantavirus Infection. Ribeiro GE, et al. Viruses, 2019 Jul 25. PMID 31349540, Free PMC Article
  5. SIRP/CD47 signaling in neurological disorders. Zhang H, et al. Brain Res, 2015 Oct 14. PMID 25795378, Free PMC Article

See all (29) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. An Insertion Within SIRPbeta1 Shows a Dual Effect Over Alzheimer's Disease Cognitive Decline Altering the Microglial Response.
    Title: An Insertion Within SIRPβ1 Shows a Dual Effect Over Alzheimer's Disease Cognitive Decline Altering the Microglial Response.
  2. Deletions in Genes Participating in Innate Immune Response Modify the Clinical Course of Andes Orthohantavirus Infection.
    Title: Deletions in Genes Participating in Innate Immune Response Modify the Clinical Course of Andes Orthohantavirus Infection.
  3. SIRPB1 copy-number polymorphism was significantly associated with impulsive-disinhibited personality scores in a dose-dependent manner.
    Title: SIRPB1 copy-number polymorphism as candidate quantitative trait locus for impulsive-disinhibited personality.
  4. A protein encoded by this locus was found to be differentially expressed in postmortem brains from patients with atypical frontotemporal lobar degeneration.
    Title: Proteomic analysis identifies dysfunction in cellular transport, energy, and protein metabolism in different brain regions of atypical frontotemporal lobar degeneration.
  5. SIRPbeta1 is a novel IFN-induced microglial receptor that supports clearance of neural debris and Abeta aggregates by stimulating phagocytosis.
    Title: Signal regulatory protein-beta1: a microglial modulator of phagocytosis in Alzheimer's disease.
  6. Using shotgun mass spectrometry, we found this protein differentially expressed in the dorsolateral prefrontal cortex from patients with schizophrenia.
    Title: Prefrontal cortex shotgun proteome analysis reveals altered calcium homeostasis and immune system imbalance in schizophrenia.
  7. This protein has been found differentially expressed in the temporal lobe from patients with schizophrenia.
    Title: Alterations in oligodendrocyte proteins, calcium homeostasis and new potential markers in schizophrenia anterior temporal lobe are revealed by shotgun proteome analysis.
  8. SIRP beta 1 is a disulfide-linked homodimer in leukocytes that regulates neutrophil transepithelial migration
    Title: SIRPbeta1 is expressed as a disulfide-linked homodimer in leukocytes and positively regulates neutrophil transepithelial migration.
Submit: New GeneRIF Correction

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

HIV-1 interactions

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Protein interactions

Protein Gene Interaction Pubs
Envelope transmembrane glycoprotein gp41 env A synthetic peptide corresponding to the immunosuppressive domain (amino acids 574-592) of HIV-1 gp41 downregulates the expression of signal-regulatory protein beta 1 (SIRPB1) in peptide-treated PBMCs PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ26614, DKFZp686A05192

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in cell surface receptor signaling pathway TAS
Traceable Author Statement
more info
 PubMed 
involved_in positive regulation of T cell activation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in positive regulation of phagocytosis IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in signal transduction TAS
Traceable Author Statement
more info
 PubMed 
Component Evidence Code Pubs
located_in cell surface TAS
Traceable Author Statement
more info
 PubMed 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in plasma membrane TAS
Traceable Author Statement
more info
  
located_in secretory granule membrane TAS
Traceable Author Statement
more info
  

General protein information

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Preferred Names
signal-regulatory protein beta-1
Names
CD172 antigen-like family member B

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_001083910.4 → NP_001077379.1  signal-regulatory protein beta-1 isoform 2 precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks two in-frame coding exons in the 3' region compared to variant 1. The resulting isoform (2) lacks an internal segment compared to isoform 1.
    Source sequence(s)
    AL049634, BC025286, BP268958, DA331023, DA761891
    Consensus CDS
    CCDS42850.1
    UniProtKB/TrEMBL
    A2RRP5
    Related
    ENSP00000371016.3, ENST00000381603.7
    Conserved Domains (2) summary
    smart00410
    Location:40 → 143
    IG_like; Immunoglobulin like
    pfam07686
    Location:37 → 144
    V-set; Immunoglobulin V-set domain

  2. NM_001135844.4 → NP_001129316.1  signal-regulatory protein beta-1 isoform 3 precursor

    See identical proteins and their annotated locations for NP_001129316.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 3' UTR and coding sequence compared to variant 1. The encoded isoform (3) is the same length as isoform 1, but these isoforms differ in their amino acid sequences. Both variants 3 and 4 encode the same isoform (3).
    Source sequence(s)
    AL138804, AL592544, BM285386, BX537992, DA761891
    Consensus CDS
    CCDS46571.1
    UniProtKB/Swiss-Prot
    Q5TFQ8, Q7Z3B9
    Related
    ENSP00000279477.7, ENST00000279477.11
    Conserved Domains (4) summary
    cd00098
    Location:265 → 338
    IgC; Immunoglobulin Constant domain
    cd00099
    Location:42 → 143
    IgV; Immunoglobulin variable domain (IgV)
    smart00410
    Location:40 → 143
    IG_like; Immunoglobulin like
    cl11960
    Location:142 → 253
    Ig; Immunoglobulin domain

  3. NM_001329157.2 → NP_001316086.1  signal-regulatory protein beta-1 isoform 3 precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) differs in the 3' UTR and coding sequence compared to variant 1. The encoded isoform (3) is the same length as isoform 1, but these isoforms differ in their amino acid sequences. Both variants 3 and 4 encode the same isoform (3).
    Source sequence(s)
    AK289866, BM285386, DA761891, DA967881
    Consensus CDS
    CCDS46571.1
    UniProtKB/Swiss-Prot
    Q5TFQ8, Q7Z3B9
    Related
    ENSP00000456826.1, ENST00000568365.1
    Conserved Domains (4) summary
    cd00098
    Location:265 → 338
    IgC; Immunoglobulin Constant domain
    cd00099
    Location:42 → 143
    IgV; Immunoglobulin variable domain (IgV)
    smart00410
    Location:40 → 143
    IG_like; Immunoglobulin like
    cl11960
    Location:142 → 253
    Ig; Immunoglobulin domain

  4. NM_001330639.2 → NP_001317568.1  signal-regulatory protein beta-1 isoform 4 precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR and coding sequence compared to variant 1. The encoded isoform (4) is shorter and has multiple differences compared to isoform 1.
    Source sequence(s)
    AL049634, BC025286, BP268958, BP300244
    Consensus CDS
    CCDS82591.1
    UniProtKB/TrEMBL
    A2RRP5, H9KV29
    Related
    ENSP00000262929.5, ENST00000262929.9
    Conserved Domains (2) summary
    smart00410
    Location:39 → 142
    IG_like; Immunoglobulin like
    pfam07686
    Location:36 → 143
    V-set; Immunoglobulin V-set domain

  5. NM_006065.5 → NP_006056.2  signal-regulatory protein beta-1 isoform 1 precursor

    See identical proteins and their annotated locations for NP_006056.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1). Isoforms 1 and 3 are the same length but differ in their amino acid sequences.
    Source sequence(s)
    AL049634, BC025286, BM010247, BP268958, BP295274, DA331023, DA761891, Y10376
    Consensus CDS
    CCDS13019.1
    UniProtKB/Swiss-Prot
    A6NLM2, B2R8V0, O00241, Q5TFQ9, Q5TFR0, Q8TB12, Q9H1U5, Q9Y4V0
    Related
    ENSP00000371018.5, ENST00000381605.9
    Conserved Domains (4) summary
    cd00098
    Location:265 → 344
    IgC; Immunoglobulin Constant domain
    cd05772
    Location:142 → 253
    IgC_SIRP; Signal-regulatory protein (SIRP) immunoglobulin-like domain
    smart00410
    Location:40 → 143
    IG_like; Immunoglobulin like
    pfam07686
    Location:37 → 144
    V-set; Immunoglobulin V-set domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000020.11 Reference GRCh38.p14 Primary Assembly

    Range
    1561385..1620009 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005260641.4 → XP_005260698.1  signal-regulatory protein beta-1 isoform X1

    Conserved Domains (4) summary
    cd00098
    Location:264 → 343
    IgC; Immunoglobulin Constant domain
    cd05772
    Location:141 → 252
    IgC_SIRP; Signal-regulatory protein (SIRP) immunoglobulin-like domain
    smart00410
    Location:39 → 142
    IG_like; Immunoglobulin like
    pfam07686
    Location:36 → 143
    V-set; Immunoglobulin V-set domain

RNA

  1. XR_007067441.1 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060944.1 Alternate T2T-CHM13v2.0

    Range
    1610569..1636143 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
O00241.5 GenPept UniProtKB/Swiss-Prot:O00241
Q5TFQ8.1 GenPept UniProtKB/Swiss-Prot:Q5TFQ8

Gene LinkOut

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

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