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

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Pathways
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Gene: Pdgfa (platelet derived growth factor subunit A) Chinchilla lanigera
Analyze
Symbol: Pdgfa
Name: platelet derived growth factor subunit A
RGD ID: 9025702
Description: ENCODES a protein that exhibits collagen binding (ortholog); growth factor activity (ortholog); identical protein binding (ortholog); INVOLVED IN actin cytoskeleton organization (ortholog); angiogenesis (ortholog); animal organ morphogenesis (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 (ortholog); extracellular space (ortholog); microvillus (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: platelet-derived growth factor alpha polypeptide; platelet-derived growth factor subunit A
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554608,326,891 - 8,346,550 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554608,328,400 - 8,346,755 (-)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

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

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Pdgfa
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554608,326,891 - 8,346,550 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554608,328,400 - 8,346,755 (-)NCBIChiLan1.0ChiLan1.0
PDGFA
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh387497,258 - 520,700 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl7497,258 - 520,296 (-)EnsemblGRCh38hg38GRCh38
GRCh377536,895 - 560,337 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 367503,421 - 526,007 (-)NCBINCBI36Build 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 Ensembl
GRCm385138,976,014 - 139,000,792 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5138,976,014 - 138,997,370 (-)EnsemblGRCm38mm10GRCm38
MGSCv375139,452,925 - 139,470,907 (-)NCBIGRCm37MGSCv37mm9NCBIm37
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 (+)NCBIGRCr8
mRatBN7.21215,645,549 - 15,667,056 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1215,645,541 - 15,666,497 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1216,456,582 - 16,477,579 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01217,080,317 - 17,101,307 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01216,102,867 - 16,123,854 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01217,734,141 - 17,756,186 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1217,734,133 - 17,755,285 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01219,727,672 - 19,749,009 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41216,151,045 - 16,172,412 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11216,180,972 - 16,202,334 (+)NCBI
Celera1217,398,134 - 17,419,591 (+)NCBICelera
Cytogenetic Map12q11NCBI
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 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha617,743,941 - 17,762,483 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0616,400,056 - 16,421,423 (+)NCBIROS_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_1.0
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 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936754808,894 - 828,554 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PDGFA
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl3301,584 - 321,712 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
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 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
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_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474026,172,808 - 26,191,557 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSCLAT00000020036   ⟹   ENSCLAP00000019843
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049554608,326,891 - 8,346,550 (-)Ensembl
RefSeq Acc Id: ENSCLAT00000020037   ⟹   ENSCLAP00000019844
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049554608,326,891 - 8,346,546 (-)Ensembl
RefSeq Acc Id: XM_005397774   ⟹   XP_005397831
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554608,329,095 - 8,345,773 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005397776   ⟹   XP_005397833
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554608,329,095 - 8,346,539 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013521277   ⟹   XP_013376731
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554608,328,400 - 8,346,546 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013521278   ⟹   XP_013376732
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554608,329,095 - 8,346,755 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013521280   ⟹   XP_013376734
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554608,330,789 - 8,346,550 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013521281   ⟹   XP_013376735
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554608,329,088 - 8,346,751 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013521282   ⟹   XP_013376736
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554608,329,095 - 8,344,913 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_005397831   ⟸   XM_005397774
- Peptide Label: isoform X6
- UniProtKB: A0A8C2VSE4 (UniProtKB/TrEMBL),   A0A8C2VZP1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005397833   ⟸   XM_005397776
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_013376731   ⟸   XM_013521277
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_013376735   ⟸   XM_013521281
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_013376732   ⟸   XM_013521278
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_013376736   ⟸   XM_013521282
- Peptide Label: isoform X6
- UniProtKB: A0A8C2VSE4 (UniProtKB/TrEMBL),   A0A8C2VZP1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013376734   ⟸   XM_013521280
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: ENSCLAP00000019844   ⟸   ENSCLAT00000020037
RefSeq Acc Id: ENSCLAP00000019843   ⟸   ENSCLAT00000020036
Protein Domains
Platelet-derived growth factor (PDGF) family


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000013606 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000020036 ENTREZGENE
  ENSCLAT00000020036.1 UniProtKB/TrEMBL
  ENSCLAT00000020037.1 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
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 A0A8C2VSE4 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C2VZP1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-08-03 Pdgfa  platelet derived growth factor subunit A    platelet-derived growth factor alpha polypeptide  Symbol and/or name change 5135510 APPROVED