Pdgfc platelet derived growth factor C [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Pdgfcprovided by RGD
Official Full Name: platelet derived growth factor Cprovided by RGD
Primary source: RGD:68410
See related: EnsemblRapid:ENSRNOG00000010695 AllianceGenome:RGD:68410
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: SCDGF
Summary: Predicted to enable platelet-derived growth factor receptor binding activity and protein homodimerization activity. Predicted to be involved in several processes, including platelet-derived growth factor receptor signaling pathway; positive regulation of cold-induced thermogenesis; and positive regulation of intracellular signal transduction. Predicted to act upstream of or within several processes, including cellular response to amino acid stimulus; positive regulation of fibroblast proliferation; and regulation of protein phosphorylation. Predicted to be located in several cellular components, including cell surface; cytosol; and extracellular region. Predicted to be active in extracellular space. Orthologous to human PDGFC (platelet derived growth factor C). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Kidney (RPKM 82.2), Adrenal (RPKM 81.7) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 2q33-q34

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (168613409..168791575)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (166316870..166493449)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (179952227..180126897)

Chromosome 2 - NC_086020.1 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 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?

Mesenchymal stem cells could inhibit the process of chronic rejection of small intestine transplant. The mechanisms may include the inhibited function of these cells on lymphocyte proliferation, reduced infiltration of macrophages, and reduced expression of transforming growth factor beta1 and platelet-derived growth factor C.
Title: Mesenchymal Stem Cells Suppress Chronic Rejection in Heterotopic Small Intestine Transplant Rat Models Via Inhibition of CD68, Transforming Growth Factor- β1, and Platelet-Derived Growth Factor Expression.
After experimental liver fibrosis, induced by bile-duct occlusion, miR-29 expression was shown to be reduced, but IGF-I and PDGF-C expression was upregulated, correlating inversely to the miR-29 pattern.
Title: Expression of platelet-derived growth factor-C and insulin-like growth factor I in hepatic stellate cells is inhibited by miR-29.
might be involved in the pathogenesis of periapical lesions
Title: Expression of a novel PDGF isoform, PDGF-C, in experimental periapical lesions.
PDGFR (platelet derived growth factor receptor)-alpha mRNA Is Upregulated in Acutely-Rejecting, and PDGF-A and PDGF-C mRNAis upregulated in Chronically-Rejecting Cardiac Allografts
Title: PDGF-A, -C, and -D but not PDGF-B increase TGF-beta1 and chronic rejection in rat cardiac allografts.
ATII induction of PDGF-C transcription is mediated by the angiotensin type 1 receptor and through an Egr-1-binding element in the PDGF-C promoter.
Title: Angiotensin II induction of PDGF-C expression is mediated by AT1 receptor-dependent Egr-1 transactivation.
PDGF-C transcription, activated by FGF-2, is mediated by Egr-1 and its upstream kinase ERK
Title: Fibroblast growth factor-2 induction of platelet-derived growth factor-C chain transcription in vascular smooth muscle cells is ERK-dependent but not JNK-dependent and mediated by Egr-1.
analysis of expression of PDGF-A, -B, -C and -D and the PDGF-receptors alpha and beta in activated rat hepatic stellate cells
Title: Expression patterns of PDGF-A, -B, -C and -D and the PDGF-receptors alpha and beta in activated rat hepatic stellate cells (HSC).
The expression of SCDGF/PDGF-C/fallotein and SCDGF-B/PDGF-D in the rat central nervous system.
Title: The expression of SCDGF/PDGF-C/fallotein and SCDGF-B/PDGF-D in the rat central nervous system.

Submit: New GeneRIF Correction

General gene information

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Markers

D2Chm24 (e-PCR)
- UniSTS:517914

BM384420 (e-PCR)
- UniSTS:261001

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables growth factor activity	IEA Inferred from Electronic Annotation more info
enables platelet-derived growth factor receptor binding	IBA Inferred from Biological aspect of Ancestor more info
enables platelet-derived growth factor receptor binding	ISO Inferred from Sequence Orthology more info
enables protein homodimerization activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within activation of transmembrane receptor protein tyrosine kinase activity	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within animal organ morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within bone development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cellular response to amino acid stimulus	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within digestive tract development	ISO Inferred from Sequence Orthology more info
acts_upstream_of fibroblast proliferation	ISO Inferred from Sequence Orthology more info
involved_in platelet-derived growth factor receptor signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within platelet-derived growth factor receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in platelet-derived growth factor receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of ERK1 and ERK2 cascade	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of cell division	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of cell migration	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of cell population proliferation	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within positive regulation of cell population proliferation	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 cold-induced thermogenesis	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cold-induced thermogenesis	ISS Inferred from Sequence or Structural Similarity more info	PubMed
acts_upstream_of_or_within positive regulation of fibroblast proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of fibroblast proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of peptidyl-tyrosine phosphorylation	ISO Inferred from Sequence Orthology more info
involved_in signal transduction	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in cell surface	ISO Inferred from Sequence Orthology more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in extracellular region	IEA Inferred from Electronic Annotation more info
located_in extracellular region	ISO Inferred from Sequence Orthology more info
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info
located_in extracellular space	ISO Inferred from Sequence Orthology more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: platelet-derived growth factor C

Names: PDGF-C; VEGF-E; fallotein; platelet-derived growth factor, C polypeptide; rScdfg; spinal cord-derived growth factor

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_031317.1 → NP_112607.1 platelet-derived growth factor C precursor

See identical proteins and their annotated locations for NP_112607.1

Status: PROVISIONAL

Source sequence(s)

AB033830

UniProtKB/Swiss-Prot

Q8K429, Q9EQX6

UniProtKB/TrEMBL

A0A0G2JTE4, A6J5T2

Related

ENSRNOP00000015081.3, ENSRNOT00000015081.6

Conserved Domains (2) summary

cd00041
Location:49 → 162

CUB; CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast.

cd00135
Location:248 → 340

PDGF; Platelet-derived and vascular endothelial growth factors (PDGF, VEGF) family domain; PDGF is a potent activator for cells of mesenchymal origin; PDGF-A and PDGF-B form AA and BB homodimers and an AB heterodimer; VEGF is a potent mitogen in embryonic and ...

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_086020.1 Reference GRCr8

Range

168613409..168791575

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039103196.2 → XP_038959124.1 platelet-derived growth factor C isoform X1

Conserved Domains (1) summary

cd00135
Location:85 → 177

PDGF; Platelet-derived and vascular endothelial growth factors (PDGF, VEGF) family domain; PDGF is a potent activator for cells of mesenchymal origin; PDGF-A and PDGF-B form AA and BB homodimers and an AB heterodimer; VEGF is a potent mitogen in embryonic and ...
XM_039103197.2 → XP_038959125.1 platelet-derived growth factor C isoform X1

Conserved Domains (1) summary

cd00135
Location:85 → 177

PDGF; Platelet-derived and vascular endothelial growth factors (PDGF, VEGF) family domain; PDGF is a potent activator for cells of mesenchymal origin; PDGF-A and PDGF-B form AA and BB homodimers and an AB heterodimer; VEGF is a potent mitogen in embryonic and ...
XM_039103198.2 → XP_038959126.1 platelet-derived growth factor C isoform X1

Conserved Domains (1) summary

cd00135
Location:85 → 177

PDGF; Platelet-derived and vascular endothelial growth factors (PDGF, VEGF) family domain; PDGF is a potent activator for cells of mesenchymal origin; PDGF-A and PDGF-B form AA and BB homodimers and an AB heterodimer; VEGF is a potent mitogen in embryonic and ...