Pdgfa (platelet derived growth factor subunit A) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Behavioral & Substance Use Disorder Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Pdgfa (platelet derived growth factor subunit A) Ictidomys tridecemlineatus
Analyze
Symbol: Pdgfa
Name: platelet derived growth factor subunit A
RGD ID: 12668754
Description: ENCODES a protein that exhibits identical protein binding (ortholog); INVOLVED IN cellular response to transforming growth factor beta stimulus (ortholog); digestive tract development (ortholog); inner ear development (ortholog); PARTICIPATES IN ceramide signaling pathway; platelet-derived growth factor signaling pathway; ASSOCIATED WITH amyotrophic lateral sclerosis type 1 (ortholog); Animal Mammary Neoplasms (ortholog); Brain Injuries (ortholog); FOUND IN cell surface (inferred); extracellular region (inferred); extracellular space (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: platelet-derived growth factor subunit A
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344144,181,428 - 144,201,439 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936754808,213 - 828,613 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936754808,894 - 828,554 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
actin cytoskeleton organization  (IEA)
angiogenesis  (IEA)
animal organ morphogenesis  (IEA)
bone development  (IEA)
cell population proliferation  (IEA)
cell projection assembly  (IEA)
cellular response to transforming growth factor beta stimulus  (ISO)
digestive tract development  (IEA,ISO)
embryonic lung development  (IEA)
hair follicle development  (IEA)
inner ear development  (ISO)
lung alveolus development  (IEA,ISO)
male gonad development  (ISO)
negative chemotaxis  (IEA)
negative regulation of phosphatidylinositol biosynthetic process  (IEA)
negative regulation of platelet activation  (IEA)
platelet-derived growth factor receptor signaling pathway  (IEA)
positive regulation of cell division  (IEA)
positive regulation of cell migration  (IEA)
positive regulation of cell population proliferation  (IEA,ISO)
positive regulation of ERK1 and ERK2 cascade  (IEA)
positive regulation of fibroblast proliferation  (IEA)
positive regulation of MAPK cascade  (IEA)
positive regulation of mesenchymal cell proliferation  (IEA)
positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway  (IEA)
positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction  (IEA)
positive regulation of protein autophosphorylation  (ISO)
regulation of branching involved in salivary gland morphogenesis by epithelial-mesenchymal signaling  (IEA)
regulation of DNA biosynthetic process  (ISO)
regulation of glomerular mesangial cell proliferation  (ISO)
regulation of peptidyl-tyrosine phosphorylation  (ISO)
regulation of smooth muscle cell migration  (IEA)
response to estradiol  (ISO)
response to hypoxia  (ISO)
response to retinoic acid  (ISO)
response to wounding  (IEA)
response to xenobiotic stimulus  (ISO)
skin development  (IEA)

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Pdgfa
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344144,181,428 - 144,201,439 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936754808,213 - 828,613 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936754808,894 - 828,554 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PDGFA
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh387497,258 - 520,700 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl7497,258 - 520,296 (-)Ensemblhg38GRCh38
GRCh377536,895 - 560,337 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 367503,421 - 526,007 (-)NCBIBuild 36Build 36hg18NCBI36
Celera7505,832 - 559,337 (-)NCBICelera
Cytogenetic Map7p22.3NCBI
HuRef7455,023 - 477,393 (-)NCBIHuRef
CHM1_17535,640 - 589,379 (-)NCBICHM1_1
T2T-CHM13v2.07598,210 - 621,677 (-)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v27598,080 - 651,496 (-)NCBI
Pdgfa
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395138,961,761 - 138,986,336 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl5138,961,769 - 138,983,125 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm385138,976,014 - 139,000,792 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5138,976,014 - 138,997,370 (-)Ensemblmm10GRCm38
MGSCv375139,452,925 - 139,470,907 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv365139,230,613 - 139,248,595 (-)NCBIMGSCv36mm8
Celera5136,032,139 - 136,049,986 (-)NCBICelera
Cytogenetic Map5G2NCBI
cM Map577.65NCBI
Pdgfa
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81220,759,366 - 20,780,337 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1220,754,208 - 20,780,322 (+)EnsemblGRCr8
mRatBN7.21215,645,549 - 15,667,056 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1215,645,541 - 15,666,497 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1216,456,582 - 16,477,579 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01217,080,317 - 17,101,307 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01216,102,867 - 16,123,854 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01217,734,141 - 17,756,186 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1217,734,133 - 17,755,285 (+)Ensemblrn6Rnor6.0
Rnor_5.01219,727,672 - 19,749,009 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41216,151,045 - 16,172,412 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1217,398,134 - 17,419,591 (+)NCBICelera
RGSC_v3.11216,180,972 - 16,202,334 (+)NCBI
Cytogenetic Map12q11NCBI
Pdgfa
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554608,326,891 - 8,346,550 (-)Ensembl
ChiLan1.0NW_0049554608,328,400 - 8,346,755 (-)NCBIChiLan1.0ChiLan1.0
PDGFA
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v265,432,364 - 5,455,805 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1753,757,065 - 53,780,304 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v07648,722 - 672,023 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.17872,204 - 888,870 (-)NCBIPanPan1.1PanPan1.1panPan2
PDGFA
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1616,271,082 - 16,293,246 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl616,270,104 - 16,292,396 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha617,743,941 - 17,762,483 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0616,400,056 - 16,421,423 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl616,400,113 - 16,420,573 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1616,204,088 - 16,222,628 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0616,130,433 - 16,148,998 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0616,420,378 - 16,438,910 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
PDGFA
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl3301,584 - 321,712 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.13296,399 - 322,967 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.23152,233 - 170,626 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PDGFA
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12821,044,549 - 21,068,411 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2821,047,219 - 21,069,827 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_023666090605,283 - 628,542 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pdgfa
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474026,169,064 - 26,188,866 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462474026,172,808 - 26,191,557 (-)NCBIHetGla 1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSSTOT00000003213   ⟹   ENSSTOP00000002867
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_004936754811,301 - 827,261 (-)Ensembl
Ensembl Acc Id: ENSSTOT00000039894   ⟹   ENSSTOP00000024322
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_004936754808,213 - 828,613 (-)Ensembl
RefSeq Acc Id: XM_005339825   ⟹   XP_005339882
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024409344144,181,911 - 144,201,439 (+)NCBI
SpeTri2.0NW_004936754808,894 - 828,554 (-)NCBI
Sequence:
RefSeq Acc Id: XM_040277138   ⟹   XP_040133072
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024409344144,181,428 - 144,201,439 (+)NCBI
Protein Sequences
Protein RefSeqs XP_005339882 (Get FASTA)   NCBI Sequence Viewer  
  XP_040133072 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000002867.2
  ENSSTOP00000024322.1
GenBank Protein KAG3260159 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: XP_005339882   ⟸   XM_005339825
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_040133072   ⟸   XM_040277138
- Peptide Label: isoform X1
Ensembl Acc Id: ENSSTOP00000024322   ⟸   ENSSTOT00000039894
Ensembl Acc Id: ENSSTOP00000002867   ⟸   ENSSTOT00000003213
Protein Domains
Platelet-derived growth factor (PDGF) family


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000003223 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000003213.3 UniProtKB/TrEMBL
  ENSSTOT00000039894.1 UniProtKB/TrEMBL
Gene3D-CATH 2.10.90.10 UniProtKB/TrEMBL
InterPro Cystine-knot_cytokine UniProtKB/TrEMBL
  PD_growth_factor_CS UniProtKB/TrEMBL
  PDGF/VEGF_dom UniProtKB/TrEMBL
  PDGF_N UniProtKB/TrEMBL
KEGG Report iti:101963872 UniProtKB/TrEMBL
NCBI Gene Pdgfa ENTREZGENE
PANTHER PLATELET-DERIVED GROWTH FACTOR UniProtKB/TrEMBL
  PLATELET-DERIVED GROWTH FACTOR SUBUNIT A UniProtKB/TrEMBL
Pfam PDGF UniProtKB/TrEMBL
  PDGF_N UniProtKB/TrEMBL
PROSITE PDGF_1 UniProtKB/TrEMBL
  PDGF_2 UniProtKB/TrEMBL
SMART PDGF UniProtKB/TrEMBL
Superfamily-SCOP SSF57501 UniProtKB/TrEMBL
UniProt A0A287CSS0_ICTTR UniProtKB/TrEMBL
  I3M1V2_ICTTR UniProtKB/TrEMBL