Links from GEO Profiles

Showing Current items.

Csf1r colony stimulating factor 1 receptor [ Rattus norvegicus (Norway rat) ]

Gene ID: 307403, updated on 28-Oct-2024

Summary

Go to the top of the page Help

Official Symbol: Csf1rprovided by RGD
Official Full Name: colony stimulating factor 1 receptorprovided by RGD
Primary source: RGD:2425
See related: EnsemblRapid:ENSRNOG00000018414 AllianceGenome:RGD:2425
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: c-fms; mrfms; CSF-1R; CSF-1-R; M-CSF-R
Summary: Enables organic cyclic compound binding activity and protein phosphatase binding activity. Involved in several processes, including negative regulation of cell differentiation; nervous system development; and positive regulation of cell population proliferation. Located in perikaryon. Used to study anti-basement membrane glomerulonephritis; bone development disease; crescentic glomerulonephritis; infertility; and lymphopenia. Human ortholog(s) of this gene implicated in adult-onset leukoencephalopathy with axonal spheroids and pigmented glia; diabetes mellitus; gastrointestinal system cancer (multiple); lung cancer (multiple); and renal cell carcinoma. Orthologous to human CSF1R (colony stimulating factor 1 receptor). [provided by Alliance of Genome Resources, Oct 2024]
Expression: Biased expression in Spleen (RPKM 534.2), Lung (RPKM 243.9) and 8 other tissues See more
Orthologs: human mouse all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help

See Csf1r in Genome Data Viewer

Location:: 18q12.1

Exon count:: 24

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	18	NC_086036.1 (56834152..56860804)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	18	NC_051353.1 (54546673..54590418)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	18	NC_005117.4 (56414493..56458300)

Chromosome 18 - NC_086036.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Macrophage deficiency in CSF1R-knockout rat embryos does not compromise placental or embryo development.
Title: Macrophage deficiency in CSF1R-knockout rat embryos does not compromise placental or embryo development.
Intraperitoneal transfer of wild-type bone marrow repopulates tissue macrophages in the Csf1r knockout rat without contributing to monocytopoiesis.
Title: Intraperitoneal transfer of wild-type bone marrow repopulates tissue macrophages in the Csf1r knockout rat without contributing to monocytopoiesis.
Analysis of homozygous and heterozygous Csf1r knockout in the rat as a model for understanding microglial function in brain development and the impacts of human CSF1R mutations.
Title: Analysis of homozygous and heterozygous Csf1r knockout in the rat as a model for understanding microglial function in brain development and the impacts of human CSF1R mutations.
CSF1R-dependent macrophages control postnatal somatic growth and organ maturation.
Title: CSF1R-dependent macrophages control postnatal somatic growth and organ maturation.
The potential mechanism of INHBC and CSF1R in diabetic nephropathy.
Title: The potential mechanism of INHBC and CSF1R in diabetic nephropathy.
The results highlight the redundant and nonredundant functions of CSF1R signaling and of macrophages in development, organogenesis, and homeostasis
Title: Pleiotropic Impacts of Macrophage and Microglial Deficiency on Development in Rats with Targeted Mutation of the Csf1r Locus.
the influence of a stimulatable IRR-tyrosine kinase on major IR/IGF1R signaling pathways and on proliferation and apoptosis of INS-1E beta-cells
Title: Activation of Erk1/2 phosphorylation but not of Akt/Pkb through an inducible CSF1R/IRR-receptor construct in INS-1E beta-cells.
c-fms blockade was shown to selectively prevent interstitial macrophage accumulation and to reduce tubular apoptosis in the obstructed kidney, but it had no significant impact on the development of interstitial fibrosis.
Title: Targeting renal macrophage accumulation via c-fms kinase reduces tubular apoptosis but fails to modify progressive fibrosis in the obstructed rat kidney.
the CSF1R mutation of Asp-802 to Val confers resistance to kinase inhibitor imatinib
Title: FMS receptor for M-CSF (CSF-1) is sensitive to the kinase inhibitor imatinib and mutation of Asp-802 to Val confers resistance.

Submit: New GeneRIF Correction

General gene information

Go to the top of the page Help

Markers

RH131310 (e-PCR)
- UniSTS:214593

MARC_12115-12116:1004707389:1 (e-PCR)
- UniSTS:267343

NoName (e-PCR)
- UniSTS:224344

Csf1r (e-PCR), detects polymorphism
- UniSTS:256388

X06368 (e-PCR)
- UniSTS:181129

AI323359 (e-PCR)
- UniSTS:181130

CSF1R_1770 (e-PCR)
- UniSTS:277131

BI288375 (e-PCR)
- UniSTS:246159

D18Mit140 (e-PCR), detects polymorphism
- UniSTS:128162

PMC219482P2 (e-PCR)
- UniSTS:272081

BI283816 (e-PCR)
- UniSTS:243672

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables cytokine binding	IEA Inferred from Electronic Annotation more info
enables cytokine binding	ISO Inferred from Sequence Orthology more info
enables cytokine binding	ISS Inferred from Sequence or Structural Similarity more info
enables growth factor binding	IBA Inferred from Biological aspect of Ancestor more info
enables macrophage colony-stimulating factor receptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables macrophage colony-stimulating factor receptor activity	IEA Inferred from Electronic Annotation more info
enables macrophage colony-stimulating factor receptor activity	ISO Inferred from Sequence Orthology more info
enables macrophage colony-stimulating factor receptor activity	ISS Inferred from Sequence or Structural Similarity more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables organic cyclic compound binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein homodimerization activity	IEA Inferred from Electronic Annotation more info
enables protein homodimerization activity	ISO Inferred from Sequence Orthology more info
enables protein phosphatase binding	IEA Inferred from Electronic Annotation more info
enables protein phosphatase binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein phosphatase binding	ISO Inferred from Sequence Orthology more info
enables transmembrane receptor protein tyrosine kinase activity	IEA Inferred from Electronic Annotation more info
enables transmembrane receptor protein tyrosine kinase activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in animal organ development	IEA Inferred from Electronic Annotation more info
involved_in axon guidance	IEA Inferred from Electronic Annotation more info
involved_in axon guidance	ISO Inferred from Sequence Orthology more info
involved_in cardiac muscle cell proliferation	IEP Inferred from Expression Pattern more info	PubMed
involved_in cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in cell surface receptor protein tyrosine kinase signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell surface receptor protein tyrosine kinase signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in cell surface receptor protein tyrosine kinase signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in cell surface receptor protein tyrosine kinase signaling pathway	ISS Inferred from Sequence or Structural Similarity more info
involved_in cell-cell junction maintenance	IEA Inferred from Electronic Annotation more info
involved_in cell-cell junction maintenance	ISO Inferred from Sequence Orthology more info
involved_in cellular response to cytokine stimulus	ISO Inferred from Sequence Orthology more info
involved_in cellular response to cytokine stimulus	ISS Inferred from Sequence or Structural Similarity more info
involved_in cellular response to macrophage colony-stimulating factor stimulus	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to macrophage colony-stimulating factor stimulus	ISO Inferred from Sequence Orthology more info
involved_in cellular response to macrophage colony-stimulating factor stimulus	ISS Inferred from Sequence or Structural Similarity more info
involved_in cellular response to transforming growth factor beta stimulus	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to tumor necrosis factor	IEP Inferred from Expression Pattern more info	PubMed
involved_in cytokine-mediated signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in cytokine-mediated signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in dentate gyrus development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in forebrain neuron differentiation	IEA Inferred from Electronic Annotation more info
involved_in forebrain neuron differentiation	ISO Inferred from Sequence Orthology more info
involved_in hemopoiesis	ISO Inferred from Sequence Orthology more info
involved_in innate immune response	IEA Inferred from Electronic Annotation more info
involved_in macrophage colony-stimulating factor signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in macrophage colony-stimulating factor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in microglia development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in microglial cell activation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in microglial cell proliferation	IDA Inferred from Direct Assay more info	PubMed
involved_in microglial cell proliferation	IEA Inferred from Electronic Annotation more info
involved_in microglial cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in monocyte homeostasis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mononuclear cell differentiation	IEP Inferred from Expression Pattern more info	PubMed
involved_in multicellular organism development	IBA Inferred from Biological aspect of Ancestor more info
involved_in myoblast proliferation	IEP Inferred from Expression Pattern more info	PubMed
involved_in negative regulation of apoptotic process	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cell population proliferation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of epithelial cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of myotube differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of platelet formation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in neuron projection extension	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in neutrophil homeostasis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in olfactory bulb development	IEA Inferred from Electronic Annotation more info
involved_in olfactory bulb development	ISO Inferred from Sequence Orthology more info
involved_in osteoclast differentiation	HEP more info	PubMed
involved_in osteoclast differentiation	IBA Inferred from Biological aspect of Ancestor more info
involved_in osteoclast differentiation	IEA Inferred from Electronic Annotation more info
involved_in osteoclast differentiation	ISO Inferred from Sequence Orthology more info
involved_in osteoclast differentiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in peptidyl-tyrosine phosphorylation	IEA Inferred from Electronic Annotation more info
involved_in peptidyl-tyrosine phosphorylation	ISO Inferred from Sequence Orthology more info
involved_in peptidyl-tyrosine phosphorylation	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation by host of viral process	IEA Inferred from Electronic Annotation more info
involved_in positive regulation by host of viral process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of ERK1 and ERK2 cascade	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of ERK1 and ERK2 cascade	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of ERK1 and ERK2 cascade	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of astrocyte activation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of bone mineralization	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of cell cycle G1/S phase transition	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of cell migration	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of cell motility	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell population proliferation	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of chemokine production	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of chemokine production	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of gene expression	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of leukocyte proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of lymphocyte proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of macrophage chemotaxis	IEA Inferred from Electronic Annotation more info
acts_upstream_of positive regulation of macrophage chemotaxis	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of macrophage migration	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of macrophage proliferation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of macrophage proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of positive regulation of macrophage proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of myoblast proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of osteoclast differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of protein phosphorylation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of protein tyrosine kinase activity	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of protein tyrosine kinase activity	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of tumor necrosis factor production	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of tyrosine phosphorylation of STAT protein	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of tyrosine phosphorylation of STAT protein	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of tyrosine phosphorylation of STAT protein	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein autophosphorylation	IEA Inferred from Electronic Annotation more info
involved_in protein autophosphorylation	ISO Inferred from Sequence Orthology more info
involved_in protein autophosphorylation	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein phosphorylation	IEA Inferred from Electronic Annotation more info
involved_in regulation of MAPK cascade	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of actin cytoskeleton organization	IEA Inferred from Electronic Annotation more info
involved_in regulation of actin cytoskeleton organization	ISO Inferred from Sequence Orthology more info
involved_in regulation of actin cytoskeleton organization	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of bone resorption	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of cell shape	IEA Inferred from Electronic Annotation more info
involved_in regulation of cell shape	ISO Inferred from Sequence Orthology more info
involved_in regulation of cell shape	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of macrophage migration	ISO Inferred from Sequence Orthology more info
involved_in regulation of macrophage migration	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of mononuclear cell proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in response to axon injury	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to hypoxia	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to ischemia	IEA Inferred from Electronic Annotation more info
involved_in response to ischemia	ISO Inferred from Sequence Orthology more info
involved_in response to lipopolysaccharide	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to mechanical stimulus	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to organic cyclic compound	IEP Inferred from Expression Pattern more info	PubMed
involved_in ruffle organization	IEA Inferred from Electronic Annotation more info
involved_in ruffle organization	ISO Inferred from Sequence Orthology more info
involved_in ruffle organization	ISS Inferred from Sequence or Structural Similarity more info
involved_in skeletal muscle cell proliferation	IEP Inferred from Expression Pattern more info	PubMed
involved_in skeletal muscle tissue development	IEP Inferred from Expression Pattern more info	PubMed

Component	Evidence Code	Pubs
part_of CSF1-CSF1R complex	IBA Inferred from Biological aspect of Ancestor more info
part_of CSF1-CSF1R complex	IEA Inferred from Electronic Annotation more info
part_of CSF1-CSF1R complex	ISO Inferred from Sequence Orthology more info
located_in cell body	IDA Inferred from Direct Assay more info	PubMed
located_in cell surface	IEA Inferred from Electronic Annotation more info
located_in cell surface	ISO Inferred from Sequence Orthology more info
located_in cell surface	ISS Inferred from Sequence or Structural Similarity more info
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in membrane	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in perikaryon	IDA Inferred from Direct Assay more info	PubMed
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
part_of receptor complex	IBA Inferred from Biological aspect of Ancestor more info

General protein information

Go to the top of the page Help

Preferred Names: macrophage colony-stimulating factor 1 receptor

Names: CSF-1 receptor; fms proto-oncogene; proto-oncogene c-Fms; proto-oncogene fms

NP_001025072.1

EC 2.7.10.1

XP_006254875.1

EC 2.7.10.1

XP_038952764.1

EC 2.7.10.1

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_001029901.1 → NP_001025072.1 macrophage colony-stimulating factor 1 receptor precursor

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000018

UniProtKB/TrEMBL

A0A8I6AEN2, D4ACA7

Related

ENSRNOP00000040411.4, ENSRNOT00000049357.6

Conserved Domains (6) summary

cd05106
Location:585 → 957

PTKc_CSF-1R; Catalytic domain of the Protein Tyrosine Kinase, Colony-Stimulating Factor-1 Receptor

cd00096
Location:458 → 541

Ig; Immunoglobulin domain

smart00410
Location:253 → 339

IG_like; Immunoglobulin like

pfam00047
Location:251 → 337

ig; Immunoglobulin domain

pfam07714
Location:624 → 948

Pkinase_Tyr; Protein tyrosine kinase

cl11960
Location:343 → 442

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_086036.1 Reference GRCr8

Range

56834152..56860804

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006254813.5 → XP_006254875.1 macrophage colony-stimulating factor 1 receptor isoform X1

See identical proteins and their annotated locations for XP_006254875.1

UniProtKB/TrEMBL

A0A0G2KBC4, A0A8I5ZZ98, A6IXF7

Related

ENSRNOP00000085048.1, ENSRNOT00000117928.2

Conserved Domains (6) summary

cd05106
Location:541 → 913

PTKc_CSF-1R; Catalytic domain of the Protein Tyrosine Kinase, Colony-Stimulating Factor-1 Receptor

cd00096
Location:414 → 497

Ig; Immunoglobulin domain

smart00410
Location:209 → 295

IG_like; Immunoglobulin like

pfam00047
Location:207 → 293

ig; Immunoglobulin domain

pfam07714
Location:580 → 904

Pkinase_Tyr; Protein tyrosine kinase

cl11960
Location:299 → 398

Ig; Immunoglobulin domain
XM_039096836.2 → XP_038952764.1 macrophage colony-stimulating factor 1 receptor isoform X2

UniProtKB/TrEMBL

A0A0G2KBC4

Related

ENSRNOP00000104481.1, ENSRNOT00000168340.1

Conserved Domains (5) summary

cd05106
Location:446 → 818

PTKc_CSF-1R; Catalytic domain of the Protein Tyrosine Kinase, Colony-Stimulating Factor-1 Receptor

smart00410
Location:28 → 101

IG_like; Immunoglobulin like

pfam13927
Location:304 → 392

Ig_3; Immunoglobulin domain

cd00096
Location:108 → 113

Ig; Ig strand A [structural motif]

cl11960
Location:108 → 200

Ig; Immunoglobulin domain