Gene Gene information from NCBI Gene database.
Entrez ID 5159
Gene name Platelet derived growth factor receptor beta
Gene symbol PDGFRB
Synonyms (NCBI Gene)
CD140BIBGC4IMF1JTK12KOGSOPDKDPDGFRPDGFR-1PDGFR1PENTT
Chromosome 5
Chromosome location 5q32
Summary The protein encoded by this gene is a cell surface tyrosine kinase receptor for members of the platelet-derived growth factor family. These growth factors are mitogens for cells of mesenchymal origin. The identity of the growth factor bound to a receptor
SNPs SNP information provided by dbSNP.
14
SNP ID Visualize variation Clinical significance Consequence
rs138008832 G>A,T Likely-pathogenic Missense variant, coding sequence variant, genic downstream transcript variant
rs144050370 G>T Pathogenic Missense variant, coding sequence variant, genic downstream transcript variant
rs367543286 G>A Pathogenic Missense variant, coding sequence variant, genic downstream transcript variant
rs397509381 A>G Pathogenic Genic downstream transcript variant, coding sequence variant, missense variant
rs397509382 G>A Pathogenic Genic downstream transcript variant, coding sequence variant, missense variant
miRNA miRNA information provided by mirtarbase database.
389
miRTarBase ID miRNA Experiments Reference
MIRT000770 hsa-miR-224-5p MicroarrayNorthern blot 16331254
MIRT053383 hsa-miR-34a-5p In situ hybridizationLuciferase reporter assayqRT-PCRWestern blot 23805317
MIRT053383 hsa-miR-34a-5p In situ hybridizationLuciferase reporter assayqRT-PCRWestern blot 23805317
MIRT053384 hsa-miR-34c-5p In situ hybridizationLuciferase reporter assayqRT-PCRWestern blot 23805317
MIRT053384 hsa-miR-34c-5p In situ hybridizationLuciferase reporter assayqRT-PCRWestern blot 23805317
Transcription factors Transcription factors information provided by TRRUST V2 database.
2
Transcription factor Regulation Reference
TP53 Activation 18697203
ZNF24 Repression 20510677
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
97
GO ID Ontology Definition Evidence Reference
GO:0000166 Function Nucleotide binding IEA
GO:0001525 Process Angiogenesis IBA
GO:0004672 Function Protein kinase activity IDA 1314164
GO:0004672 Function Protein kinase activity IEA
GO:0004713 Function Protein tyrosine kinase activity IDA 1653029
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
173410 8804 ENSG00000113721
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
P09619
Protein name Platelet-derived growth factor receptor beta (PDGF-R-beta) (PDGFR-beta) (EC 2.7.10.1) (Beta platelet-derived growth factor receptor) (Beta-type platelet-derived growth factor receptor) (CD140 antigen-like family member B) (Platelet-derived growth factor r
Protein function Tyrosine-protein kinase that acts as a cell-surface receptor for homodimeric PDGFB and PDGFD and for heterodimers formed by PDGFA and PDGFB, and plays an essential role in the regulation of embryonic development, cell proliferation, survival, di
PDB 1GQ5 , 1H9O , 1SHA , 2IUI , 2L6W , 2PLD , 2PLE , 3MJG
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF00047 ig 37 114 Immunoglobulin domain Domain
PF13927 Ig_3 213 295 Domain
PF07679 I-set 327 413 Immunoglobulin I-set domain Domain
PF07714 PK_Tyr_Ser-Thr 600 958 Protein tyrosine and serine/threonine kinase Domain
Sequence
MRLPGAMPALALKGELLLLSLLLLLEPQISQGLVVTPPGPELVLNVSSTFVLTCSGSAPV
VWERMSQEPPQEMAKAQDGTFSSVLTLTNLTGLDTGEYFCTHNDSRGLETDERK
RLYIFV
PDPTVGFLPNDAEELFIFLTEITEITIPCRVTDPQLVVTLHEKKGDVALPVPYDHQRGFS
GIFEDRSYICKTTIGDREVDSDAYYVYRLQVSSINVSVNAVQTVVRQGENITLMCIVIGN
EVVNFEWTYPRKESGRLVEPVTDFLLDMPYHIRSILHIPSAELEDSGTYTCNVTE
SVNDH
QDEKAINITVVESGYVRLLGEVGTLQFAELHRSRTLQVVFEAYPPPTVLWFKDNRTLGDS
SAGEIALSTRNVSETRYVSELTLVRVKVAEAGHYTMRAFHEDAEVQLSFQLQI
NVPVRVL
ELSESHPDSGEQTVRCRGRGMPQPNIIWSACRDLKRCPRELPPTLLGNSSEEESQLETNV
TYWEEEQEFEVVSTLRLQHVDRPLSVRCTLRNAVGQDTQEVIVVPHSLPFKVVVISAILA
LVVLTIISLIILIMLWQKKPRYEIRWKVIESVSSDGHEYIYVDPMQLPYDSTWELPRDQL
VLGRTLGSGAFGQVVEATAHGLSHSQATMKVAVKMLKSTARSSEKQALMSELKIMSHLGP
HLNVVNLLGACTKGGPIYIITEYCRYGDLVDYLHRNKHTFLQHHSDKRRPPSAELYSNAL
PVGLPLPSHVSLTGESDGGYMDMSKDESVDYVPMLDMKGDVKYADIESSNYMAPYDNYVP
SAPERTCRATLINESPVLSYMDLVGFSYQVANGMEFLASKNCVHRDLAARNVLICEGKLV
KICDFGLARDIMRDSNYISKGSTFLPLKWMAPESIFNSLYTTLSDVWSFGILLWEIFTLG
GTPYPELPMNEQFYNAIKRGYRMAQPAHASDEIYEIMQKCWEEKFEIRPPFSQLVLLL
ER
LLGEGYKKKYQQVDEEFLRSDHPAILRSQARLPGFHGLRSPLDTSSVLYTAVQPNEGDND
YIIPLPDPKPEVADEGPLEGSPSLASSTLNEVNTSSTISCDSPLEPQDEPEPEPQLELQV
EPEPELEQLPDSGCPAPRAEAEDSFL
Sequence length 1106
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG  Reactome
  EGFR tyrosine kinase inhibitor resistance
MAPK signaling pathway
Ras signaling pathway
Rap1 signaling pathway
Calcium signaling pathway
Phospholipase D signaling pathway
PI3K-Akt signaling pathway
Focal adhesion
Gap junction
JAK-STAT signaling pathway
Regulation of actin cytoskeleton
Human papillomavirus infection
Pathways in cancer
MicroRNAs in cancer
Glioma
Prostate cancer
Melanoma
Central carbon metabolism in cancer
Choline metabolism in cancer
  PIP3 activates AKT signaling
Downstream signal transduction
Signaling by PDGF
Constitutive Signaling by Aberrant PI3K in Cancer
RAF/MAP kinase cascade
PI5P, PP2A and IER3 Regulate PI3K/AKT Signaling
Associated diseases Disease associations from ClinVar (causal & non-causal) and other databases (OMIM, Orphanet, GWAS, etc.).
42
Evidence Score: ★☆☆☆☆  Gene-disease association found in Text Mining only ★★☆☆☆  Found in Text Mining and Unknown/Other Associations ★★★☆☆  Reported in Unknown/Other Associations across ≥2 Sources ★★★★☆  ClinVar: Pathogenic/Likely Pathogenic (<5 Variants) ★★★★★  ClinVar: Pathogenic/Likely Pathogenic (≥5 Variants)
Causal Diseases associated with Pathogenic or Likely Pathogenic variants in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession Evidence Score
Acroosteolysis-keloid-like lesions-premature aging syndrome Likely pathogenic; Pathogenic rs2113894766, rs797044887, rs1554108211, rs2113888986, rs2481203941, rs367543286 RCV003754933
RCV005222819
RCV000585893
RCV003006084
RCV003781038
View all (1 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Basal ganglia calcification, idiopathic, 4 Likely pathogenic; Pathogenic rs797044887, rs2113888986, rs2481203941, rs397509381, rs367543286 RCV005222819
RCV003006084
RCV003781038
RCV000032788
RCV001197225
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Infantile myofibromatosis Likely pathogenic; Pathogenic rs797044887, rs2113888986, rs864309711, rs2481203941, rs1060499543, rs1060499541, rs1060499540, rs367543286, rs1760270922, rs1760271956, rs1760272027, rs1760301005, rs1760406652 RCV005222819
RCV003006084
RCV000454371
RCV003781038
RCV000454373
View all (9 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Myeloproliferative disorder, chronic, with eosinophilia Likely pathogenic; Pathogenic rs2113894766, rs863224946 RCV002250183
RCV001335958
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Unknown / Other Associations ClinVar entries with uncertain/conflicting evidence, and associations from other databases (OMIM, Orphanet, GWAS, etc.) where the gene is not established as causal.
Phenotype Name Clinical Significance Source Evidence Score
Acute myeloid leukemia Benign ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
BASAL GANGLIA CALCIFICATION, IDIOPATHIC, 1 HPO
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
BASAL GANGLIA DISEASES CTD, Disgenet
CTD, Disgenet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
BILATERAL STRIOPALLIDODENTATE CALCINOSIS GenCC, Orphanet
GenCC, Orphanet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Associations from Text Mining Disease associations identified through text mining
Disease Name Disease (Merged) Source PMID Relationship Type Evidence Score
Acro-Osteolysis Acrosteolysis HPO_DG
★☆☆☆☆
Found in Text Mining only
Acroosteolysis-keloid-like lesions-premature aging syndrome Aging syndrome Orphanet
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Acute lymphocytic leukemia Lymphocytic Leukemia BEFREE 24628626, 26872634, 28000100, 30301811
★☆☆☆☆
Found in Text Mining only
Acute Promyelocytic Leukemia Promyelocytic Leukemia BEFREE 28449810
★☆☆☆☆
Found in Text Mining only
Adenocarcinoma Adenocarcinoma BEFREE 31308421
★☆☆☆☆
Found in Text Mining only
Adenocarcinoma Of Esophagus Esophageal Cancer BEFREE 21751195
★☆☆☆☆
Found in Text Mining only
Adenocarcinoma of lung (disorder) Lung adenocarcinoma BEFREE 30584903
★☆☆☆☆
Found in Text Mining only
Adenocarcinoma of pancreas Pancreatic adenocarcinoma BEFREE 23950591
★☆☆☆☆
Found in Text Mining only
Adenoma Adenoma BEFREE 20358421
★☆☆☆☆
Found in Text Mining only
Adrenal Gland Pheochromocytoma Adrenal Gland Pheochromocytoma BEFREE 24390213, 28196027
★☆☆☆☆
Found in Text Mining only