Sirpa signal-regulatory protein alpha [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Sirpaprovided by RGD
Official Full Name: signal-regulatory protein alphaprovided by RGD
Primary source: RGD:3449
See related: Ensembl:ENSRNOG00000004763 AllianceGenome:RGD:3449
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Bit; Ptpns1; SHPS-1
Summary: Enables GTPase regulator activity; enzyme binding activity; and protein binding activity involved in heterotypic cell-cell adhesion. Involved in several processes, including cellular response to cytokine stimulus; monocyte extravasation; and regulation of cytokine production. Located in cell surface. Orthologous to several human genes including SIRPA (signal regulatory protein alpha). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Spleen (RPKM 215.3), Brain (RPKM 133.4) and 8 other tissues See more
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Genomic context

Location:: 3q36

Exon count:: 11

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (137272932..137311279)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (116819730..116858099)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (122113735..122152478)

Chromosome 3 - NC_086021.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Anti-tumor effect of PTEN and its effect on inhibition of the bone tumor through the CD47-SIRPalpha signaling pathway.
Title: Anti-tumor effect of PTEN and its effect on inhibition of the bone tumor through the CD47-SIRPα signaling pathway.
In the glomeruli of CNS patients carrying mutations in NPHS1, where SD formation is disrupted, the expression of SIRPalpha as well as Neph1 and nephrin was significantly decreased, indicating that SIRPalpha is closely associated with the nephrin complex
Title: SIRPα interacts with nephrin at the podocyte slit diaphragm.
Data suggest that hyperglycemia induces increase in association of SHPS-1 with IAP (integrin-associated protein); this appears to be a generalized response of endothelial cells that contributes to endothelial cell dysfunction.
Title: Disruption of the association of integrin-associated protein (IAP) with tyrosine phosphatase non-receptor type substrate-1 (SHPS)-1 inhibits pathophysiological changes in retinal endothelial function in a rat model of diabetes.
Data demonstrate that BIT/SHPS-1 promotes the antiapoptotic effect of BDNF on the low potassium-induced cell death of cerebellar granule neuronss.
Title: BIT/SHPS-1 promotes antiapoptotic effect of BDNF on low potassium-induced cell death of cultured cerebellar granule neurons.
Data show that myelin down-regulates its own phagocytosis through CD47-SIRPalpha interactions.
Title: Myelin down-regulates myelin phagocytosis by microglia and macrophages through interactions between CD47 on myelin and SIRPα (signal regulatory protein-α) on phagocytes.
CD47-SIRP-alpha interaction may be functionally important in cell-cell communication in the diseased glomerulus.
Title: SIRP-alpha-CD47 system functions as an intercellular signal in the renal glomerulus.
Insulin-like growth factor-I-stimulated insulin receptor substrate-1 negatively regulates Src homology 2 domain-containing protein-tyrosine phosphatase substrate-1 function in vascular smooth muscle cells.
Title: Insulin-like growth factor-I-stimulated insulin receptor substrate-1 negatively regulates Src homology 2 domain-containing protein-tyrosine phosphatase substrate-1 function in vascular smooth muscle cells.
Tyrosine phosphorylation level of BIT in the retina is higher in the light period than in the dark period.
Title: Tyrosine phosphorylation of BIT on photic stimulation in the rat retina.
may play a role in the termination of hepatic proliferation during liver regeneration induced by physiological stress or pathological states, such as PH, drugs, toxins
Title: Effects of SIRPalpha1 on liver regeneration after partial hepatectomy in rat.
SIRP alpha and SHP-1 potentially mediate the inhibitory effect of elastic laminae on monocyte adhesion.
Title: Negative regulation of monocyte adhesion to arterial elastic laminae by signal regulatory protein alpha and Src homology 2 domain-containing protein-tyrosine phosphatase-1.

Submit: New GeneRIF Correction See all GeneRIFs (18)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables GTPase regulator activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables SH3 domain binding	IEA Inferred from Electronic Annotation more info
enables cell-cell adhesion mediator activity	ISO Inferred from Sequence Orthology more info
enables protein antigen binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein binding involved in heterotypic cell-cell adhesion	IPI Inferred from Physical Interaction more info	PubMed
enables protein phosphatase binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein phosphatase binding	ISO Inferred from Sequence Orthology more info
enables protein phosphorylated amino acid binding	ISO Inferred from Sequence Orthology more info
enables protein tyrosine kinase binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within actin filament organization	ISO Inferred from Sequence Orthology more info
involved_in cell migration	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within cell motility	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cell-matrix adhesion	ISO Inferred from Sequence Orthology more info
involved_in cellular response to hydrogen peroxide	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cellular response to interleukin-1	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cellular response to interleukin-12	ISO Inferred from Sequence Orthology more info
involved_in cellular response to lipopolysaccharide	ISO Inferred from Sequence Orthology more info
involved_in cellular response to type II interferon	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within cytoskeleton organization	ISO Inferred from Sequence Orthology more info
involved_in granulocyte migration	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within hematopoietic progenitor cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in heterotypic cell-cell adhesion	IEA Inferred from Electronic Annotation more info
involved_in monocyte extravasation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of ERK1 and ERK2 cascade	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of I-kappaB phosphorylation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of JNK cascade	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of chemokine (C-C motif) ligand 5 production	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cytokine production involved in inflammatory response	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of inflammatory response	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of interferon-beta production	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of interleukin-6 production	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of macrophage inflammatory protein 1 alpha production	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of nitric oxide biosynthetic process	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of phagocytosis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of phagocytosis	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of protein phosphorylation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of tumor necrosis factor production	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within phagocytosis, engulfment	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within phagocytosis, recognition	ISO Inferred from Sequence Orthology more info
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
acts_upstream_of_or_within positive regulation of phagocytosis	ISO Inferred from Sequence Orthology more info
involved_in regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in regulation of interleukin-1 beta production	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of interleukin-6 production	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of nitric oxide biosynthetic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of tumor necrosis factor production	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of tumor necrosis factor production	ISO Inferred from Sequence Orthology more info
involved_in regulation of type II interferon production	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cell surface	IDA Inferred from Direct Assay more info	PubMed
located_in cell surface	ISO Inferred from Sequence Orthology more info
located_in membrane	IEA Inferred from Electronic Annotation more info
is_active_in 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	TAS Traceable Author Statement more info

General protein information

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Preferred Names: tyrosine-protein phosphatase non-receptor type substrate 1

Names: Brain immunoglobulin like protein with tyrosine - based activation motifs; CD172 antigen-like family member A; Protein tyrosine phosphatase, non-receptor type substrate 1 (SHP substrate 1); SHP substrate 1; brain Ig-like molecule with tyrosine-based activation motifs; inhibitory receptor SHPS-1; macrophage fusion receptor; macrophage membrane protein MFP150; signal-regulatory protein alpha-1; sirp-alpha-1

NP_037148.3

EC 3.1.3.48

XP_006235014.1

EC 3.1.3.48

XP_006235015.1

EC 3.1.3.48

XP_017446985.1

EC 3.1.3.48

XP_017446986.1

EC 3.1.3.48

XP_038960309.1

EC 3.1.3.48

XP_063139229.1

EC 3.1.3.48

XP_063139230.1

EC 3.1.3.48

XP_063139231.1

EC 3.1.3.48

XP_063139232.1

EC 3.1.3.48

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)

NM_013016.3 → NP_037148.3 tyrosine-protein phosphatase non-receptor type substrate 1 precursor

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000003

UniProtKB/Swiss-Prot

O08951, O70426, P97710, Q9QWI5

UniProtKB/TrEMBL

A0A8I6ADR4, A6HQ65

Related

ENSRNOP00000006408.6, ENSRNOT00000006408.7

Conserved Domains (4) summary

cd00096
Location:35 → 38

Ig; Ig strand A [structural motif]

cd05772
Location:149 → 250

IgC1_SIRP_domain_2; Signal-regulatory protein (SIRP) immunoglobulin-like domain 2; member of the C1-set of Ig superfamily (IgSF) domains

cd16085
Location:253 → 348

IgC1_SIRP_domain_3; Signal-regulatory protein (SIRP) immunoglobulin-like domain 3; member of the C1-set of Ig superfamily (IgSF) domains

cl11960
Location:35 → 147

Ig; Immunoglobulin domain

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086021.1 Reference GRCr8

Range

137272932..137311279

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006234952.5 → XP_006235014.1 tyrosine-protein phosphatase non-receptor type substrate 1 isoform X1

See identical proteins and their annotated locations for XP_006235014.1

UniProtKB/TrEMBL

A0A8I6ADR4, Q499T3

Related

ENSRNOP00000069024.1

Conserved Domains (4) summary

cd00098
Location:266 → 344

IgC; Immunoglobulin Constant domain

smart00410
Location:41 → 146

IG_like; Immunoglobulin like

pfam07686
Location:38 → 147

V-set; Immunoglobulin V-set domain

cl11960
Location:146 → 255

Ig; Immunoglobulin domain
XM_063283159.1 → XP_063139229.1 tyrosine-protein phosphatase non-receptor type substrate 1 isoform X2

UniProtKB/Swiss-Prot

O08951, O70426, P97710, Q9QWI5

UniProtKB/TrEMBL

A6HQ65
XM_063283162.1 → XP_063139232.1 tyrosine-protein phosphatase non-receptor type substrate 1 isoform X4
XM_017591496.3 → XP_017446985.1 tyrosine-protein phosphatase non-receptor type substrate 1 isoform X1

UniProtKB/TrEMBL

A0A8I6ADR4, Q499T3

Conserved Domains (4) summary

cd00098
Location:266 → 344

IgC; Immunoglobulin Constant domain

smart00410
Location:41 → 146

IG_like; Immunoglobulin like

pfam07686
Location:38 → 147

V-set; Immunoglobulin V-set domain

cl11960
Location:146 → 255

Ig; Immunoglobulin domain
XM_063283160.1 → XP_063139230.1 tyrosine-protein phosphatase non-receptor type substrate 1 isoform X2

UniProtKB/Swiss-Prot

O08951, O70426, P97710, Q9QWI5

UniProtKB/TrEMBL

A6HQ65
XM_006234953.5 → XP_006235015.1 tyrosine-protein phosphatase non-receptor type substrate 1 isoform X1

See identical proteins and their annotated locations for XP_006235015.1

UniProtKB/TrEMBL

A0A8I6ADR4, Q499T3

Conserved Domains (4) summary

cd00098
Location:266 → 344

IgC; Immunoglobulin Constant domain

smart00410
Location:41 → 146

IG_like; Immunoglobulin like

pfam07686
Location:38 → 147

V-set; Immunoglobulin V-set domain

cl11960
Location:146 → 255

Ig; Immunoglobulin domain
XM_017591497.3 → XP_017446986.1 tyrosine-protein phosphatase non-receptor type substrate 1 isoform X2

UniProtKB/Swiss-Prot

O08951, O70426, P97710, Q9QWI5

UniProtKB/TrEMBL

A0A8I6ADR4, A6HQ65

Conserved Domains (4) summary

cd00096
Location:35 → 38

Ig; Ig strand A [structural motif]

cd05772
Location:149 → 250

IgC1_SIRP_domain_2; Signal-regulatory protein (SIRP) immunoglobulin-like domain 2; member of the C1-set of Ig superfamily (IgSF) domains

cd16085
Location:253 → 348

IgC1_SIRP_domain_3; Signal-regulatory protein (SIRP) immunoglobulin-like domain 3; member of the C1-set of Ig superfamily (IgSF) domains

cl11960
Location:35 → 147

Ig; Immunoglobulin domain
XM_039104381.2 → XP_038960309.1 tyrosine-protein phosphatase non-receptor type substrate 1 isoform X5

UniProtKB/TrEMBL

A0A8I6A0T2, A6HQ67

Related

ENSRNOP00000083855.1

Conserved Domains (2) summary

cd00096
Location:35 → 38

Ig; Ig strand A [structural motif]

cl11960
Location:35 → 147

Ig; Immunoglobulin domain
XM_063283161.1 → XP_063139231.1 tyrosine-protein phosphatase non-receptor type substrate 1 isoform X3