Pdgfrb platelet derived growth factor receptor beta [ Rattus norvegicus (Norway rat) ]

Gene ID: 24629, updated on 11-Apr-2024

Summary

Official Symbol: Pdgfrbprovided by RGD
Official Full Name: platelet derived growth factor receptor betaprovided by RGD
Primary source: RGD:3285
See related: Ensembl:ENSRNOG00000018461 AllianceGenome:RGD:3285
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: PDGFR-1
Summary: Enables phosphatidylinositol 3-kinase binding activity and platelet-derived growth factor-activated receptor activity. Involved in several processes, including animal organ development; positive regulation of Rho protein signal transduction; and regulation of apoptotic process. Located in several cellular components, including apical plasma membrane; cell surface; and nucleus. Used to study extrahepatic cholestasis; middle cerebral artery infarction; and prostate cancer. Biomarker of hypertension; oligohydramnios; and sciatic neuropathy. Human ortholog(s) of this gene implicated in basal ganglia calcification; glioblastoma; infantile myofibromatosis; myeloproliferative neoplasm (multiple); and renal cell carcinoma. Orthologous to human PDGFRB (platelet derived growth factor receptor beta). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Kidney (RPKM 224.3), Lung (RPKM 214.5) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 18q12.1

Exon count:: 24

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	18	NC_086036.1 (56770348..56809228)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	18	NC_051353.1 (54499962..54538840)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	18	NC_005117.4 (56364586..56406381)

Chromosome 18 - NC_086036.1 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?

In the Rat Hippocampus, Pilocarpine-Induced Status Epilepticus Is Associated with Reactive Glia and Concomitant Increased Expression of CD31, PDGFRbeta, and Collagen IV in Endothelial Cells and Pericytes of the Blood-Brain Barrier.
Title: In the Rat Hippocampus, Pilocarpine-Induced Status Epilepticus Is Associated with Reactive Glia and Concomitant Increased Expression of CD31, PDGFRβ, and Collagen IV in Endothelial Cells and Pericytes of the Blood-Brain Barrier.
PDGFRB upregulation contributes to retinal damages in the rat model of retinal ischemia-reperfusion.
Title: PDGFRB upregulation contributes to retinal damages in the rat model of retinal ischemia-reperfusion.
PDGF-beta and IL-18 Expressions on Carcinoma Cervical by Rhodomyrtus tomentosa.
Title: PDGF-β and IL-18 Expressions on Carcinoma Cervical by Rhodomyrtus tomentosa.
Methylation-mediated silencing of PTPRD induces pulmonary hypertension by promoting pulmonary arterial smooth muscle cell migration via the PDGFRB/PLCgamma1 axis.
Title: Methylation-mediated silencing of PTPRD induces pulmonary hypertension by promoting pulmonary arterial smooth muscle cell migration via the PDGFRB/PLCγ1 axis.
Cardiac microvascular functions improved by MSC-derived exosomes attenuate cardiac fibrosis after ischemia-reperfusion via PDGFR-beta modulation.
Title: Cardiac microvascular functions improved by MSC-derived exosomes attenuate cardiac fibrosis after ischemia-reperfusion via PDGFR-β modulation.
Activation of spinal PDGFRbeta in microglia promotes neuronal autophagy via p38 MAPK pathway in morphine-tolerant rats.
Title: Activation of spinal PDGFRβ in microglia promotes neuronal autophagy via p38 MAPK pathway in morphine-tolerant rats.
Low-activity programming of the PDGFRbeta/FAK pathway mediates H-type vessel dysplasia and high susceptibility to osteoporosis in female offspring rats after prenatal dexamethasone exposure.
Title: Low-activity programming of the PDGFRβ/FAK pathway mediates H-type vessel dysplasia and high susceptibility to osteoporosis in female offspring rats after prenatal dexamethasone exposure.
Tensile force-induced PDGF-BB/PDGFRbeta signals in periodontal ligament fibroblasts activate JAK2/STAT3 for orthodontic tooth movement.
Title: Tensile force-induced PDGF-BB/PDGFRβ signals in periodontal ligament fibroblasts activate JAK2/STAT3 for orthodontic tooth movement.
study shows that Platelet-derived growth factor receptor-beta/interferon regulatory factor 9/sirtuin 1/NF-kappaB signaling played a role in the vascular smooth muscle cell phenotypic transformation after subarachnoid hemorrhage
Title: PDGFR-β modulates vascular smooth muscle cell phenotype via IRF-9/SIRT-1/NF-κB pathway in subarachnoid hemorrhage rats.
Developmental 2,3,7,8-tetrachlorodibenzo-p-dioxin and high fat diet exposure induced changes in body growth and feeding behaviors that may be mediated by brain Pdgfrb level changes: Pdgfrb levels in the hippocampus and striatum were inversely correlated with increases in body length, while changes in Pdgfrb in the amygdala and nucleus accumbens were significantly correlated to body weight gain or body mass index.
Title: Effects of high fat diet and perinatal dioxin exposure on development of body size and expression of platelet-derived growth factor receptor β in the rat brain.

Submit: New GeneRIF Correction See all GeneRIFs (51)

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 ATP binding	IEA Inferred from Electronic Annotation more info
enables enzyme binding	ISO Inferred from Sequence Orthology more info
enables kinase activity	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables phosphatidylinositol 3-kinase binding	IPI Inferred from Physical Interaction more info	PubMed
enables platelet-derived growth factor beta-receptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables platelet-derived growth factor beta-receptor activity	IEA Inferred from Electronic Annotation more info
enables platelet-derived growth factor beta-receptor activity	ISO Inferred from Sequence Orthology more info
enables platelet-derived growth factor beta-receptor activity	ISS Inferred from Sequence or Structural Similarity more info
enables platelet-derived growth factor binding	IBA Inferred from Biological aspect of Ancestor more info
enables platelet-derived growth factor binding	IEA Inferred from Electronic Annotation more info
enables platelet-derived growth factor binding	ISO Inferred from Sequence Orthology more info
enables platelet-derived growth factor receptor activity	IDA Inferred from Direct Assay more info	PubMed
enables platelet-derived growth factor receptor activity	ISO Inferred from Sequence Orthology more info
enables platelet-derived growth factor receptor activity	TAS Traceable Author Statement more info	PubMed
enables platelet-derived growth factor receptor binding	IEA Inferred from Electronic Annotation more info
enables platelet-derived growth factor receptor binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein kinase activity	ISO Inferred from Sequence Orthology more info
enables protein kinase activity	TAS Traceable Author Statement more info	PubMed
enables protein kinase binding	IEA Inferred from Electronic Annotation more info
enables protein kinase binding	ISO Inferred from Sequence Orthology more info
enables protein tyrosine kinase activity	IDA Inferred from Direct Assay more info	PubMed
enables protein tyrosine kinase activity	ISO Inferred from Sequence Orthology more info
enables protein tyrosine kinase activity	TAS Traceable Author Statement more info	PubMed
enables signaling receptor binding	ISO Inferred from Sequence Orthology more info
enables vascular endothelial growth factor binding	IEA Inferred from Electronic Annotation more info
enables vascular endothelial growth factor binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within adrenal gland development	ISO Inferred from Sequence Orthology more info
involved_in angiogenesis	IBA Inferred from Biological aspect of Ancestor more info
involved_in animal organ development	IEA Inferred from Electronic Annotation more info
involved_in aorta morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in blood vessel development	ISO Inferred from Sequence Orthology more info
involved_in cardiac myofibril assembly	ISO Inferred from Sequence Orthology more info
involved_in cardiac myofibril assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in cell chemotaxis	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell chemotaxis	IEA Inferred from Electronic Annotation more info
involved_in cell chemotaxis	ISO Inferred from Sequence Orthology more info
involved_in cell chemotaxis	ISS Inferred from Sequence or Structural Similarity more info
involved_in cell migration involved in coronary angiogenesis	ISO Inferred from Sequence Orthology more info
involved_in cell migration involved in coronary angiogenesis	ISS Inferred from Sequence or Structural Similarity more info
involved_in cell migration involved in vasculogenesis	ISO Inferred from Sequence Orthology more info
involved_in cell migration involved in vasculogenesis	ISS Inferred from Sequence or Structural Similarity more info
involved_in cell surface receptor protein tyrosine kinase signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in cellular response to growth factor stimulus	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cellular response to hydrogen peroxide	ISO Inferred from Sequence Orthology more info
involved_in cellular response to platelet-derived growth factor stimulus	IEA Inferred from Electronic Annotation more info
involved_in embryonic organ development	ISO Inferred from Sequence Orthology more info
involved_in glycosaminoglycan biosynthetic process	IMP Inferred from Mutant Phenotype more info	PubMed
NOT involved_in hemopoiesis	ISO Inferred from Sequence Orthology more info
NOT involved_in hemopoiesis	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within in utero embryonic development	ISO Inferred from Sequence Orthology more info
involved_in inner ear development	IEP Inferred from Expression Pattern more info	PubMed
involved_in intracellular signal transduction	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within kidney development	ISO Inferred from Sequence Orthology more info
involved_in lung growth	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in male gonad development	IEP Inferred from Expression Pattern more info	PubMed
involved_in metanephric S-shaped body morphogenesis	IEP Inferred from Expression Pattern more info	PubMed
involved_in metanephric comma-shaped body morphogenesis	IEP Inferred from Expression Pattern more info	PubMed
involved_in metanephric glomerular capillary formation	ISO Inferred from Sequence Orthology more info
involved_in metanephric glomerular capillary formation	ISS Inferred from Sequence or Structural Similarity more info
involved_in metanephric glomerular mesangial cell proliferation involved in metanephros development	ISO Inferred from Sequence Orthology more info
involved_in metanephric glomerular mesangial cell proliferation involved in metanephros development	ISS Inferred from Sequence or Structural Similarity more info
involved_in metanephric glomerular mesangium development	ISO Inferred from Sequence Orthology more info
involved_in metanephric glomerulus morphogenesis	IEP Inferred from Expression Pattern more info	PubMed
involved_in metanephric mesenchymal cell migration	IDA Inferred from Direct Assay more info	PubMed
involved_in metanephric mesenchyme development	IEP Inferred from Expression Pattern more info	PubMed
involved_in multicellular organism development	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in phosphatidylinositol metabolic process	IEA Inferred from Electronic Annotation more info
involved_in phosphatidylinositol metabolic process	ISO Inferred from Sequence Orthology more info
involved_in phosphatidylinositol metabolic process	ISS Inferred from Sequence or Structural Similarity 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 platelet-derived growth factor receptor-beta signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in platelet-derived growth factor receptor-beta signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA biosynthetic process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA biosynthetic process	ISS Inferred from Sequence or Structural Similarity 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 Rho protein signal transduction	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of calcium ion import	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of calcium ion import	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of calcium-mediated signaling	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of calcium-mediated signaling	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of calcium-mediated signaling	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of cell migration	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell migration	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of cell population proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell proliferation by VEGF-activated platelet derived growth factor receptor signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of cell proliferation by VEGF-activated platelet derived growth factor receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of chemotaxis	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of chemotaxis	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of collagen biosynthetic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of fibroblast proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of hepatic stellate cell activation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of kinase activity	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of mitotic nuclear division	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of mitotic nuclear division	ISS Inferred from Sequence or Structural Similarity more info
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 reactive oxygen species metabolic process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of reactive oxygen species metabolic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of smooth muscle cell migration	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of smooth muscle cell migration	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of smooth muscle cell migration	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of smooth muscle cell migration	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of smooth muscle cell proliferation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of smooth muscle cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of smooth muscle cell proliferation	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of actin cytoskeleton organization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of peptidyl-tyrosine phosphorylation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within response to ceramide	ISO Inferred from Sequence Orthology more info
involved_in response to estradiol	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to estrogen	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to fluid shear stress	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to hydrogen peroxide	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to hyperoxia	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to lipid	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 response to retinoic acid	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to toxic substance	IEP Inferred from Expression Pattern more info	PubMed
involved_in retina vasculature development in camera-type eye	ISO Inferred from Sequence Orthology more info
involved_in retina vasculature development in camera-type eye	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within ruffle assembly	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within signal transduction	ISO Inferred from Sequence Orthology more info
involved_in signal transduction	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within skeletal system morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in smooth muscle cell chemotaxis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within smooth muscle tissue development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within tissue homeostasis	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in Golgi apparatus	IEA Inferred from Electronic Annotation more info
located_in Golgi apparatus	ISO Inferred from Sequence Orthology more info
located_in apical plasma membrane	IDA Inferred from Direct Assay more info	PubMed
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 cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic vesicle	IEA Inferred from Electronic Annotation more info
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
located_in lysosomal lumen	IEA Inferred from Electronic Annotation more info
located_in membrane	ISO Inferred from Sequence Orthology more info
located_in membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in nucleus	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	IDA Inferred from Direct Assay more info	PubMed
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
located_in ruffle	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: platelet-derived growth factor receptor beta

Names: CD140 antigen-like family member B; PDGF-R-beta; PDGFR-beta; Platelet-derived growth factor receptor, beta; beta platelet-derived growth factor receptor; beta-type platelet-derived growth factor receptor; platelet derived growth factor receptor, beta polypeptide; platelet-derived growth factor receptor 1

NP_113713.1

EC 2.7.10.1

XP_038952501.1

EC 2.7.10.1

XP_063133164.1

EC 2.7.10.1

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_031525.2 → NP_113713.1 platelet-derived growth factor receptor beta precursor

See identical proteins and their annotated locations for NP_113713.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000018

UniProtKB/Swiss-Prot

Q05030, Q8R406, Q925F7

UniProtKB/TrEMBL

A0A8L2R1W6, A6IXF6

Related

ENSRNOP00000069485.2, ENSRNOT00000086033.2

Conserved Domains (4) summary

pfam00047
Location:36 → 113

ig; Immunoglobulin domain

cd00096
Location:211 → 215

Ig; Ig strand A [structural motif]

cl11960
Location:313 → 414

Ig; Immunoglobulin domain

cl21453
Location:561 → 952

PKc_like; Protein Kinases, catalytic 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

56770348..56809228

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039096573.2 → XP_038952501.1 platelet-derived growth factor receptor beta isoform X1

UniProtKB/Swiss-Prot

Q05030, Q8R406, Q925F7

UniProtKB/TrEMBL

A0A8L2R1W6, A6IXF6

Related

ENSRNOP00000060534.2

Conserved Domains (4) summary

pfam00047
Location:36 → 113

ig; Immunoglobulin domain

cd00096
Location:211 → 215

Ig; Ig strand A [structural motif]

cl11960
Location:313 → 414

Ig; Immunoglobulin domain

cl21453
Location:561 → 952

PKc_like; Protein Kinases, catalytic domain
XM_063277094.1 → XP_063133164.1 platelet-derived growth factor receptor beta isoform X2