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

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Gene: PDGFA (platelet derived growth factor subunit A) Sus scrofa
Analyze
Symbol: PDGFA
Name: platelet derived growth factor subunit A
RGD ID: 14198659
Description: ENCODES a protein that exhibits 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 microvillus (ortholog); platelet-derived growth factor complex (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
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
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
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  (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  (ISO)
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  (IEA)
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  (IEA)
response to estradiol  (ISO)
response to hypoxia  (ISO)
response to retinoic acid  (ISO)
response to wounding  (IEA)
response to xenobiotic stimulus  (ISO)
signal transduction  (IEA)
skin development  (ISO)

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:14681463   PMID:17145712   PMID:17694440   PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
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
(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
(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
(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
(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

Variants

.
Variants in PDGFA
629 total Variants

Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium
Low 9 4 3 4 2 23 2 3
Below cutoff 1 1 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000008273   ⟹   ENSSSCP00000008054
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl3303,311 - 323,036 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000039294   ⟹   ENSSSCP00000031249
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl3303,311 - 321,712 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000039589   ⟹   ENSSSCP00000044976
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl3303,516 - 321,712 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000092944   ⟹   ENSSSCP00000080551
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl3301,584 - 321,681 (-)Ensembl
RefSeq Acc Id: XM_013987660   ⟹   XP_013843114
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.13304,447 - 321,971 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013987661   ⟹   XP_013843115
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.13304,447 - 321,967 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021085925   ⟹   XP_020941584
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.13296,399 - 322,967 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021085926   ⟹   XP_020941585
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.13304,447 - 321,967 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021085927   ⟹   XP_020941586
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.13296,399 - 322,580 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021085928   ⟹   XP_020941587
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.13296,399 - 322,957 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021085929   ⟹   XP_020941588
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.13304,447 - 321,577 (-)NCBI
Sequence:
RefSeq Acc Id: XR_001303251
Type: NON-CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.13304,447 - 321,971 (-)NCBI
Sequence:
RefSeq Acc Id: XR_001303253
Type: NON-CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.13304,447 - 321,969 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_020941584   ⟸   XM_021085925
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_020941587   ⟸   XM_021085928
- Peptide Label: isoform X3
- UniProtKB: A0A4X1TFD9 (UniProtKB/TrEMBL),   A0A8D1PVS6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020941586   ⟸   XM_021085927
- Peptide Label: isoform X3
- UniProtKB: A0A4X1TFD9 (UniProtKB/TrEMBL),   A0A8D1PVS6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013843114   ⟸   XM_013987660
- Peptide Label: isoform X5
- UniProtKB: A0A4X1TBG4 (UniProtKB/TrEMBL),   A0A8W4FMH5 (UniProtKB/TrEMBL),   A0A4X1TFD4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020941585   ⟸   XM_021085926
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_013843115   ⟸   XM_013987661
- Peptide Label: isoform X6
- UniProtKB: A0A287ALU6 (UniProtKB/TrEMBL),   A0A4X1TD69 (UniProtKB/TrEMBL),   A0A4X1TFD4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020941588   ⟸   XM_021085929
- Peptide Label: isoform X4
- UniProtKB: A0A4X1TFD4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000031249   ⟸   ENSSSCT00000039294
RefSeq Acc Id: ENSSSCP00000044976   ⟸   ENSSSCT00000039589
RefSeq Acc Id: ENSSSCP00000008054   ⟸   ENSSSCT00000008273
RefSeq Acc Id: ENSSSCP00000080551   ⟸   ENSSSCT00000092944
Protein Domains
Platelet-derived growth factor (PDGF) family


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000007541 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00015058161 UniProtKB/TrEMBL
  ENSSSCG00025003107 UniProtKB/TrEMBL
  ENSSSCG00030060241 UniProtKB/TrEMBL
  ENSSSCG00035043758 UniProtKB/TrEMBL
  ENSSSCG00045011286 UniProtKB/TrEMBL
  ENSSSCG00050014706 UniProtKB/TrEMBL
  ENSSSCG00055006242 UniProtKB/TrEMBL
  ENSSSCG00060024656 UniProtKB/TrEMBL
  ENSSSCG00065054238 UniProtKB/TrEMBL
  ENSSSCG00070008452 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000039589 ENTREZGENE
  ENSSSCT00000039589.3 UniProtKB/TrEMBL
  ENSSSCT00000092944 ENTREZGENE
  ENSSSCT00000092944.1 UniProtKB/TrEMBL
  ENSSSCT00015077549.1 UniProtKB/TrEMBL
  ENSSSCT00015077581.1 UniProtKB/TrEMBL
  ENSSSCT00015077815.1 UniProtKB/TrEMBL
  ENSSSCT00025004091.1 UniProtKB/TrEMBL
  ENSSSCT00025004102.1 UniProtKB/TrEMBL
  ENSSSCT00030084117.1 UniProtKB/TrEMBL
  ENSSSCT00030084136.1 UniProtKB/TrEMBL
  ENSSSCT00035058147.1 UniProtKB/TrEMBL
  ENSSSCT00035058149.1 UniProtKB/TrEMBL
  ENSSSCT00045019131.1 UniProtKB/TrEMBL
  ENSSSCT00045019158.1 UniProtKB/TrEMBL
  ENSSSCT00050019874.1 UniProtKB/TrEMBL
  ENSSSCT00050019889.1 UniProtKB/TrEMBL
  ENSSSCT00055012094.1 UniProtKB/TrEMBL
  ENSSSCT00055012136.1 UniProtKB/TrEMBL
  ENSSSCT00060033412.1 UniProtKB/TrEMBL
  ENSSSCT00060033418.1 UniProtKB/TrEMBL
  ENSSSCT00065074303.1 UniProtKB/TrEMBL
  ENSSSCT00065074307.1 UniProtKB/TrEMBL
  ENSSSCT00070016296.1 UniProtKB/TrEMBL
  ENSSSCT00070016302.1 UniProtKB/TrEMBL
  ENSSSCT00070016306.1 UniProtKB/TrEMBL
  ENSSSCT00070016310.1 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 ssc:100519764 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 A0A287ALU6 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1TBG4 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1TD69 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1TFD4 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1TFD9 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1PVS6 ENTREZGENE, UniProtKB/TrEMBL
  A0A8W4FMH5 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:91265 ENTREZGENE