Pdgfd (platelet derived growth factor D) - Rat Genome Database

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Gene: Pdgfd (platelet derived growth factor D) Rattus norvegicus
Analyze
Symbol: Pdgfd
Name: platelet derived growth factor D
RGD ID: 621880
Description: Predicted to enable platelet-derived growth factor receptor binding activity. Involved in several processes, including cellular response to platelet-derived growth factor stimulus; positive regulation of cell migration; and positive regulation of cell population proliferation. Located in extracellular space. Used to study glomerulonephritis and mesangial proliferative glomerulonephritis. Biomarker of liver cirrhosis; mesangial proliferative glomerulonephritis; and myocardial infarction. Human ortholog(s) of this gene implicated in prostatic hypertrophy. Orthologous to human PDGFD (platelet derived growth factor D); PARTICIPATES IN platelet-derived growth factor signaling pathway; melanoma pathway; prostate cancer pathway; INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; aflatoxin B1.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: iris-expressed growth factor; PDGF-D; platelet-derived growth factor D; platelet-derived growth factor, D polypeptide; rSCDGF-B; SCDGF-B; Scdgfb; spinal cord-derived growth factor B; spinal-cord derived growth factor-B protein
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8811,773,335 - 12,007,277 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl811,773,475 - 12,007,271 (+)EnsemblGRCr8
mRatBN7.283,488,448 - 3,722,395 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl83,488,423 - 3,722,395 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx87,456,757 - 7,689,644 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.085,754,534 - 5,987,421 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.083,748,256 - 3,982,028 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.084,441,010 - 4,666,754 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl84,440,876 - 4,669,014 (+)Ensemblrn6Rnor6.0
Rnor_5.084,454,510 - 4,682,165 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.483,326,218 - 3,341,300 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera85,067,751 - 5,287,344 (+)NCBICelera
RGSC_v3.183,125,520 - 3,341,300 (+)NCBI
Cytogenetic Map8q11NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dichloroethane  (ISO)
17beta-estradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
3,4-methylenedioxymethamphetamine  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
8-Br-cAMP  (ISO)
aflatoxin B1  (EXP,ISO)
alpha-Zearalanol  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
butanal  (ISO)
CGP 52608  (ISO)
choline  (ISO)
cisplatin  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
cyclosporin A  (ISO)
decabromodiphenyl ether  (EXP)
dexamethasone  (ISO)
dibenz[a,h]anthracene  (ISO)
Dibutyl phosphate  (ISO)
diethyl malate  (ISO)
dioxygen  (ISO)
doxorubicin  (ISO)
fenvalerate  (EXP)
flutamide  (EXP)
folic acid  (ISO)
fulvestrant  (ISO)
furan  (EXP)
gentamycin  (EXP)
glycidol  (EXP)
indometacin  (ISO)
inulin  (ISO)
isoprenaline  (ISO)
L-methionine  (ISO)
lead diacetate  (ISO)
losartan  (EXP)
methylmercury chloride  (ISO)
microcystin-LR  (EXP)
mono(2-ethylhexyl) phthalate  (ISO)
nickel atom  (ISO)
ozone  (ISO)
paracetamol  (EXP)
paraquat  (EXP)
perfluorononanoic acid  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (EXP)
permethrin  (ISO)
SB 431542  (ISO)
sevoflurane  (EXP)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
temozolomide  (ISO)
tetrachloromethane  (ISO)
titanium dioxide  (ISO)
trichloroethene  (EXP)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
triphenyl phosphate  (ISO)
tunicamycin  (ISO)
urethane  (ISO)
valproic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. PDGF-D inhibition by CR002 ameliorates tubulointerstitial fibrosis following experimental glomerulonephritis. Boor P, etal., Nephrol Dial Transplant. 2007 May;22(5):1323-31. Epub 2007 Feb 17.
2. Pro-fibrogenic potential of PDGF-D in liver fibrosis. Borkham-Kamphorst E, etal., J Hepatol. 2007 Jun;46(6):1064-74. Epub 2007 Feb 23.
3. Expression patterns of PDGF-A, -B, -C and -D and the PDGF-receptors alpha and beta in activated rat hepatic stellate cells (HSC). Breitkopf K, etal., Cytokine. 2005 Sep 7;31(5):349-57.
4. PDGF-D contributes to neointimal hyperplasia in rat model of vessel injury. Chen J, etal., Biochem Biophys Res Commun. 2005 Apr 15;329(3):976-83.
5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
6. Molecular cloning of SCDGF-B, a novel growth factor homologous to SCDGF/PDGF-C/fallotein. Hamada T, etal., Biochem Biophys Res Commun 2001 Jan 26;280(3):733-7.
7. The expression of SCDGF/PDGF-C/fallotein and SCDGF-B/PDGF-D in the rat central nervous system. Hamada T, etal., Mech Dev 2002 Mar;112(1-2):161-4.
8. A novel function for platelet-derived growth factor D: induction of osteoclastic differentiation for intraosseous tumor growth. Huang W, etal., Oncogene. 2012 Oct 18;31(42):4527-35. doi: 10.1038/onc.2011.573. Epub 2011 Dec 12.
9. Inducible platelet-derived growth factor D-chain expression by angiotensin II and hydrogen peroxide involves transcriptional regulation by Ets-1 and Sp1. Liu MY, etal., Blood. 2006 Mar 15;107(6):2322-9. Epub 2005 Sep 27.
10. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
11. Differential tumorigenic potential and matriptase activation between PDGF B versus PDGF D in prostate cancer. Najy AJ, etal., Mol Cancer Res. 2012 Aug;10(8):1087-97. doi: 10.1158/1541-7786.MCR-12-0071. Epub 2012 Jun 11.
12. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
13. A fully human monoclonal antibody (CR002) identifies PDGF-D as a novel mediator of mesangioproliferative glomerulonephritis. Ostendorf T, etal., J Am Soc Nephrol. 2003 Sep;14(9):2237-47.
14. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
15. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
16. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
17. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
18. Comprehensive gene review and curation RGD comprehensive gene curation
19. Angiotensin II-inducible platelet-derived growth factor-D transcription requires specific Ser/Thr residues in the second zinc finger region of Sp1. Tan NY, etal., Circ Res. 2008 Feb 29;102(4):e38-51. doi: 10.1161/CIRCRESAHA.107.167395. Epub 2008 Feb 7.
20. PDGF-A, -C, and -D but not PDGF-B increase TGF-beta1 and chronic rejection in rat cardiac allografts. Tuuminen R, etal., Arterioscler Thromb Vasc Biol. 2009 May;29(5):691-8. doi: 10.1161/ATVBAHA.108.178558. Epub 2009 Feb 12.
21. A novel signaling axis of matriptase/PDGF-D/ß-PDGFR in human prostate cancer. Ustach CV, etal., Cancer Res. 2010 Dec 1;70(23):9631-40. doi: 10.1158/0008-5472.CAN-10-0511. Epub 2010 Nov 23.
22. Induction of progressive glomerulonephritis by podocyte-specific overexpression of platelet-derived growth factor-D. van Roeyen CR, etal., Kidney Int. 2011 Dec;80(12):1292-305. doi: 10.1038/ki.2011.278. Epub 2011 Aug 24.
23. Aberrantly Methylated-Differentially Expressed Genes Identify Novel Atherosclerosis Risk Subtypes. Xue Y, etal., Front Genet. 2020 Dec 14;11:569572. doi: 10.3389/fgene.2020.569572. eCollection 2020.
24. Platelet-derived growth factor-D promotes fibrogenesis of cardiac fibroblasts. Zhao T, etal., Am J Physiol Heart Circ Physiol. 2013 Jun 15;304(12):H1719-26. doi: 10.1152/ajpheart.00130.2013. Epub 2013 Apr 12.
25. Platelet-derived growth factor involvement in myocardial remodeling following infarction. Zhao W, etal., J Mol Cell Cardiol. 2011 Nov;51(5):830-8. doi: 10.1016/j.yjmcc.2011.06.023. Epub 2011 Jul 13.
Additional References at PubMed
PMID:11940581   PMID:15611105   PMID:20548288   PMID:23254481   PMID:23376485   PMID:24006456   PMID:25148874   PMID:30483778  


Genomics

Comparative Map Data
Pdgfd
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8811,773,335 - 12,007,277 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl811,773,475 - 12,007,271 (+)EnsemblGRCr8
mRatBN7.283,488,448 - 3,722,395 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl83,488,423 - 3,722,395 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx87,456,757 - 7,689,644 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.085,754,534 - 5,987,421 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.083,748,256 - 3,982,028 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.084,441,010 - 4,666,754 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl84,440,876 - 4,669,014 (+)Ensemblrn6Rnor6.0
Rnor_5.084,454,510 - 4,682,165 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.483,326,218 - 3,341,300 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera85,067,751 - 5,287,344 (+)NCBICelera
RGSC_v3.183,125,520 - 3,341,300 (+)NCBI
Cytogenetic Map8q11NCBI
PDGFD
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3811103,907,189 - 104,164,147 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl11103,907,189 - 104,164,379 (-)Ensemblhg38GRCh38
GRCh3711103,777,917 - 104,034,875 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3611103,283,124 - 103,540,237 (-)NCBIBuild 36Build 36hg18NCBI36
Celera11100,938,918 - 101,198,288 (-)NCBICelera
Cytogenetic Map11q22.3NCBI
HuRef1199,706,933 - 99,964,618 (-)NCBIHuRef
CHM1_111103,660,854 - 103,917,997 (-)NCBICHM1_1
T2T-CHM13v2.011103,910,709 - 104,168,067 (-)NCBIT2T-CHM13v2.0
Pdgfd
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3996,168,377 - 6,534,284 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl96,168,584 - 6,378,850 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm3896,168,363 - 6,534,284 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl96,168,584 - 6,378,850 (+)Ensemblmm10GRCm38
MGSCv3796,168,612 - 6,377,519 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv3696,168,612 - 6,377,519 (+)NCBIMGSCv36mm8
Celera93,573,881 - 3,783,053 (+)NCBICelera
Cytogenetic Map9A1NCBI
cM Map92.46NCBI
Pdgfd
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554126,866,869 - 7,093,998 (-)Ensembl
ChiLan1.0NW_0049554126,868,995 - 7,093,353 (-)NCBIChiLan1.0ChiLan1.0
PDGFD
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v29104,705,685 - 104,963,328 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan111105,795,250 - 106,051,391 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01198,852,652 - 99,110,147 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.111102,337,099 - 102,593,741 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl11102,357,079 - 102,593,273 (-)EnsemblpanPan2panpan1.1
PDGFD
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1527,863,739 - 28,092,376 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl527,863,591 - 28,089,936 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha527,797,064 - 28,031,427 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0527,910,756 - 28,139,449 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl527,910,863 - 28,139,447 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1527,944,599 - 28,172,420 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0527,831,224 - 28,058,908 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0528,005,540 - 28,233,502 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Pdgfd
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494787,338,657 - 87,562,388 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365513,974,104 - 4,198,927 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365513,974,140 - 4,197,852 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PDGFD
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl934,388,643 - 34,621,244 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1934,388,636 - 34,621,227 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2938,432,144 - 38,616,298 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PDGFD
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1195,293,263 - 95,551,138 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl195,292,193 - 95,385,199 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604330,343,471 - 30,592,345 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pdgfd
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046249181,052,567 - 1,293,192 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046249181,052,640 - 1,293,138 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Pdgfd
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v182,836,918 - 3,046,425 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Pdgfd
1815 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:28
Count of miRNA genes:28
Interacting mature miRNAs:28
Transcripts:ENSRNOT00000049325
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
12880023Bw184Body weight QTL 1840.001body mass (VT:0001259)body weight (CMO:0000012)81038254055382540Rat
9590084Insglur5Insulin/glucose ratio QTL 518.540.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)8132882639Rat
12880028Cm103Cardiac mass QTL 1030.02heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)81038254055382540Rat
12880044Am9Aortic mass QTL 90.007aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)81038254055382540Rat
12880025Cm102Cardiac mass QTL 1020.044heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)81038254055382540Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 149 91 90 59 29 59 6 293 129 11 128 81 92 31 11 11

Sequence


Ensembl Acc Id: ENSRNOT00000049325   ⟹   ENSRNOP00000039308
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl84,440,876 - 4,668,545 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000076529   ⟹   ENSRNOP00000068187
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl811,773,475 - 12,007,271 (+)Ensembl
mRatBN7.2 Ensembl83,488,423 - 3,722,395 (+)Ensembl
Rnor_6.0 Ensembl84,440,902 - 4,669,014 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000076748   ⟹   ENSRNOP00000067974
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl811,773,475 - 12,004,792 (+)Ensembl
mRatBN7.2 Ensembl83,488,614 - 3,719,910 (+)Ensembl
Rnor_6.0 Ensembl84,440,980 - 4,668,545 (+)Ensembl
RefSeq Acc Id: NM_023962   ⟹   NP_076452
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8811,773,508 - 12,007,277 (+)NCBI
mRatBN7.283,488,614 - 3,722,395 (+)NCBI
Rnor_6.084,441,010 - 4,666,754 (+)NCBI
Rnor_5.084,454,510 - 4,682,165 (+)NCBI
RGSC_v3.483,326,218 - 3,341,300 (+)RGD
Celera85,067,751 - 5,287,344 (+)RGD
Sequence:
RefSeq Acc Id: XM_039082130   ⟹   XP_038938058
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8811,773,335 - 12,007,277 (+)NCBI
mRatBN7.283,488,448 - 3,722,395 (+)NCBI
Protein Sequences
Protein RefSeqs NP_076452 (Get FASTA)   NCBI Sequence Viewer  
  XP_038938058 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein BAB18920 (Get FASTA)   NCBI Sequence Viewer  
  EDL78544 (Get FASTA)   NCBI Sequence Viewer  
  EDL78545 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000068187
  ENSRNOP00000068187.2
GenBank Protein Q9EQT1 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_076452   ⟸   NM_023962
- Peptide Label: precursor
- UniProtKB: Q9EQT1 (UniProtKB/Swiss-Prot),   A6JN21 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000039308   ⟸   ENSRNOT00000049325
Ensembl Acc Id: ENSRNOP00000067974   ⟸   ENSRNOT00000076748
Ensembl Acc Id: ENSRNOP00000068187   ⟸   ENSRNOT00000076529
RefSeq Acc Id: XP_038938058   ⟸   XM_039082130
- Peptide Label: isoform X1
Protein Domains
CUB   Platelet-derived growth factor (PDGF) family

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9EQT1-F1-model_v2 AlphaFold Q9EQT1 1-370 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13695736
Promoter ID:EPDNEW_R6252
Type:single initiation site
Name:Pdgfd_1
Description:platelet derived growth factor D
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.084,440,902 - 4,440,962EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621880 AgrOrtholog
BioCyc Gene G2FUF-31804 BioCyc
Ensembl Genes ENSRNOG00000029148 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000076529 ENTREZGENE
  ENSRNOT00000076529.3 UniProtKB/Swiss-Prot
Gene3D-CATH 2.10.90.10 UniProtKB/Swiss-Prot
  2.60.120.290 UniProtKB/Swiss-Prot
InterPro CUB_dom UniProtKB/Swiss-Prot
  Cystine-knot_cytokine UniProtKB/Swiss-Prot
  PDGF/VEGF_dom UniProtKB/Swiss-Prot
  Sperma_CUB_dom_sf UniProtKB/Swiss-Prot
KEGG Report rno:66018 UniProtKB/Swiss-Prot
NCBI Gene 66018 ENTREZGENE
PANTHER PLATELET-DERIVED GROWTH FACTOR UniProtKB/Swiss-Prot
  PTHR11633:SF4 UniProtKB/Swiss-Prot
Pfam CUB UniProtKB/Swiss-Prot
  PDGF UniProtKB/Swiss-Prot
PhenoGen Pdgfd PhenoGen
PROSITE CUB UniProtKB/Swiss-Prot
  PDGF_2 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000029148 RatGTEx
SMART CUB UniProtKB/Swiss-Prot
  PDGF UniProtKB/Swiss-Prot
Superfamily-SCOP SSF49854 UniProtKB/Swiss-Prot
  SSF57501 UniProtKB/Swiss-Prot
UniProt A0A096MJ33_RAT UniProtKB/TrEMBL
  A6JN21 ENTREZGENE, UniProtKB/TrEMBL
  A6JN22_RAT UniProtKB/TrEMBL
  PDGFD_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-10-05 Pdgfd  platelet derived growth factor D  Pdgfd  platelet-derived growth factor, D polypeptide  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Pdgfd  platelet-derived growth factor, D polypeptide  Scdgfb  spinal-cord derived growth factor-B protein  Symbol and Name updated 1299863 APPROVED
2002-08-07 Scdgfb  spinal-cord derived growth factor-B protein      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_domains contains two regions homologous to CUB and PDGF/vascular endothelial growth factor (VEGF) domains 68286
gene_homology member of the PDGF/VEGF superfamily 68286