PDGFD (platelet derived growth factor D)

Gene

• Entrez ID: 80310
• Gene name: Platelet derived growth factor D
• Gene symbol: PDGFD
• Synonyms: IEGF, MSTP036, SCDGF-B, SCDGFB
• Chromosome: 11
• Chromosome location: 11q22.3
• Summary: The protein encoded by this gene is a member of the platelet-derived growth factor family. The four members of this family are mitogenic factors for cells of mesenchymal origin and are characterized by a core motif of eight cysteines, seven of which are f

miRNA

miRTarBase ID	miRNA	Experiments	Reference
MIRT030746	hsa-miR-21-5p	Microarray	18591254
MIRT053656	hsa-miR-145-5p	Microarray	22942087
MIRT756188	hsa-miR-429	Western blotting, qRT-PCR	35509844
MIRT1221212	hsa-miR-1257	CLIP-seq
MIRT1221213	hsa-miR-125a-3p	CLIP-seq
MIRT1221214	hsa-miR-125a-5p	CLIP-seq
MIRT1221215	hsa-miR-125b	CLIP-seq
MIRT1221216	hsa-miR-1265	CLIP-seq
MIRT1221217	hsa-miR-3132	CLIP-seq
MIRT1221218	hsa-miR-3200-5p	CLIP-seq
MIRT1221219	hsa-miR-4319	CLIP-seq
MIRT1221220	hsa-miR-4427	CLIP-seq
MIRT1221221	hsa-miR-4639-3p	CLIP-seq
MIRT1221222	hsa-miR-4650-3p	CLIP-seq
MIRT1221223	hsa-miR-4680-3p	CLIP-seq
MIRT1221224	hsa-miR-4732-3p	CLIP-seq
MIRT1221225	hsa-miR-4756-3p	CLIP-seq
MIRT1221226	hsa-miR-4764-5p	CLIP-seq
MIRT1221227	hsa-miR-4773	CLIP-seq
MIRT1221228	hsa-miR-610	CLIP-seq
MIRT1221229	hsa-miR-670	CLIP-seq
MIRT2063840	hsa-miR-224	CLIP-seq
MIRT1221217	hsa-miR-3132	CLIP-seq
MIRT2063841	hsa-miR-3185	CLIP-seq
MIRT2063842	hsa-miR-371-5p	CLIP-seq
MIRT2063843	hsa-miR-4420	CLIP-seq
MIRT1221221	hsa-miR-4639-3p	CLIP-seq
MIRT1221222	hsa-miR-4650-3p	CLIP-seq
MIRT1221227	hsa-miR-4773	CLIP-seq
MIRT2439251	hsa-miR-3148	CLIP-seq
MIRT2439252	hsa-miR-331-5p	CLIP-seq
MIRT2439253	hsa-miR-4678	CLIP-seq
MIRT2439251	hsa-miR-3148	CLIP-seq
MIRT2439252	hsa-miR-331-5p	CLIP-seq
MIRT2439253	hsa-miR-4678	CLIP-seq
MIRT2590104	hsa-miR-103b	CLIP-seq
MIRT2590105	hsa-miR-1182	CLIP-seq
MIRT2590106	hsa-miR-1206	CLIP-seq
MIRT2590107	hsa-miR-1229	CLIP-seq
MIRT2590108	hsa-miR-1244	CLIP-seq
MIRT2590109	hsa-miR-138	CLIP-seq
MIRT2590110	hsa-miR-3117-3p	CLIP-seq
MIRT2590111	hsa-miR-3169	CLIP-seq
MIRT2590112	hsa-miR-325	CLIP-seq
MIRT2590113	hsa-miR-33a	CLIP-seq
MIRT2590114	hsa-miR-33b	CLIP-seq
MIRT2590115	hsa-miR-3620	CLIP-seq
MIRT2590116	hsa-miR-3653	CLIP-seq
MIRT2590117	hsa-miR-3658	CLIP-seq
MIRT2590118	hsa-miR-3672	CLIP-seq
MIRT2590119	hsa-miR-4317	CLIP-seq
MIRT2590120	hsa-miR-4422	CLIP-seq
MIRT2590121	hsa-miR-4496	CLIP-seq
MIRT2590122	hsa-miR-4509	CLIP-seq
MIRT2590123	hsa-miR-4511	CLIP-seq
MIRT2590124	hsa-miR-4667-3p	CLIP-seq
MIRT2590125	hsa-miR-4740-5p	CLIP-seq
MIRT2590126	hsa-miR-4759	CLIP-seq
MIRT1221227	hsa-miR-4773	CLIP-seq
MIRT2590127	hsa-miR-512-5p	CLIP-seq
MIRT2590128	hsa-miR-545	CLIP-seq
MIRT2590129	hsa-miR-548b-3p	CLIP-seq
MIRT2590130	hsa-miR-548m	CLIP-seq
MIRT2590131	hsa-miR-549	CLIP-seq
MIRT2590132	hsa-miR-581	CLIP-seq
MIRT2590133	hsa-miR-659	CLIP-seq
MIRT2590134	hsa-miR-890	CLIP-seq
MIRT2590135	hsa-miR-892b	CLIP-seq
MIRT2590104	hsa-miR-103b	CLIP-seq
MIRT2590105	hsa-miR-1182	CLIP-seq
MIRT2590106	hsa-miR-1206	CLIP-seq
MIRT2590107	hsa-miR-1229	CLIP-seq
MIRT2590108	hsa-miR-1244	CLIP-seq
MIRT2590109	hsa-miR-138	CLIP-seq
MIRT2687454	hsa-miR-1827	CLIP-seq
MIRT2590110	hsa-miR-3117-3p	CLIP-seq
MIRT2687455	hsa-miR-3155	CLIP-seq
MIRT2687456	hsa-miR-3155b	CLIP-seq
MIRT2590111	hsa-miR-3169	CLIP-seq
MIRT2687457	hsa-miR-3173-3p	CLIP-seq
MIRT2687458	hsa-miR-323b-5p	CLIP-seq
MIRT2590112	hsa-miR-325	CLIP-seq
MIRT2590113	hsa-miR-33a	CLIP-seq
MIRT2590114	hsa-miR-33b	CLIP-seq
MIRT2687459	hsa-miR-3612	CLIP-seq
MIRT2590115	hsa-miR-3620	CLIP-seq
MIRT2590116	hsa-miR-3653	CLIP-seq
MIRT2590117	hsa-miR-3658	CLIP-seq
MIRT2590118	hsa-miR-3672	CLIP-seq
MIRT2590119	hsa-miR-4317	CLIP-seq
MIRT2687460	hsa-miR-4328	CLIP-seq
MIRT2590120	hsa-miR-4422	CLIP-seq
MIRT2687461	hsa-miR-4495	CLIP-seq
MIRT2590121	hsa-miR-4496	CLIP-seq
MIRT2590122	hsa-miR-4509	CLIP-seq
MIRT2590123	hsa-miR-4511	CLIP-seq
MIRT2590124	hsa-miR-4667-3p	CLIP-seq
MIRT2687462	hsa-miR-4695-5p	CLIP-seq
MIRT2687463	hsa-miR-4703-3p	CLIP-seq
MIRT2590125	hsa-miR-4740-5p	CLIP-seq
MIRT2590126	hsa-miR-4759	CLIP-seq
MIRT1221227	hsa-miR-4773	CLIP-seq
MIRT2687464	hsa-miR-4799-5p	CLIP-seq
MIRT2687465	hsa-miR-484	CLIP-seq
MIRT2590127	hsa-miR-512-5p	CLIP-seq
MIRT2590128	hsa-miR-545	CLIP-seq
MIRT2590129	hsa-miR-548b-3p	CLIP-seq
MIRT2590130	hsa-miR-548m	CLIP-seq
MIRT2590131	hsa-miR-549	CLIP-seq
MIRT2590132	hsa-miR-581	CLIP-seq
MIRT2687466	hsa-miR-582-3p	CLIP-seq
MIRT2687467	hsa-miR-650	CLIP-seq
MIRT2590133	hsa-miR-659	CLIP-seq
MIRT2590134	hsa-miR-890	CLIP-seq
MIRT2590135	hsa-miR-892b	CLIP-seq

Gene ontology (GO)

GO ID	Ontology	Definition	Evidence	Reference
GO:0000139	Component	Golgi membrane	TAS
GO:0005161	Function	Platelet-derived growth factor receptor binding	IBA	21873635
GO:0005576	Component	Extracellular region	TAS
GO:0005615	Component	Extracellular space	IBA	21873635
GO:0005788	Component	Endoplasmic reticulum lumen	TAS
GO:0007275	Process	Multicellular organism development	IEA
GO:0008083	Function	Growth factor activity	IEA
GO:0008284	Process	Positive regulation of cell population proliferation	IBA	21873635
GO:0014068	Process	Positive regulation of phosphatidylinositol 3-kinase signaling	IBA	21873635
GO:0030335	Process	Positive regulation of cell migration	IBA	21873635
GO:0031954	Process	Positive regulation of protein autophosphorylation	IBA	21873635
GO:0036120	Process	Cellular response to platelet-derived growth factor stimulus	IEA
GO:0043406	Process	Positive regulation of MAP kinase activity	IBA	21873635
GO:0048008	Process	Platelet-derived growth factor receptor signaling pathway	IBA	21873635
GO:0048146	Process	Positive regulation of fibroblast proliferation	IEA
GO:0048661	Process	Positive regulation of smooth muscle cell proliferation	IEA
GO:0050730	Process	Regulation of peptidyl-tyrosine phosphorylation	IEA
GO:0051781	Process	Positive regulation of cell division	IEA
GO:0070301	Process	Cellular response to hydrogen peroxide	IEA
GO:0070374	Process	Positive regulation of ERK1 and ERK2 cascade	IBA	21873635
GO:0070851	Function	Growth factor receptor binding	IBA	21873635
GO:0071230	Process	Cellular response to amino acid stimulus	IEA
GO:0071560	Process	Cellular response to transforming growth factor beta stimulus	IEA
GO:0071673	Process	Positive regulation of smooth muscle cell chemotaxis	IEA
GO:0072126	Process	Positive regulation of glomerular mesangial cell proliferation	IEA
GO:2000439	Process	Positive regulation of monocyte extravasation	IEA

Other IDs

• MIM: 609673
• HGNC: 30620
• e!Ensembl: ENSG00000170962

Protein

• UniProt ID: Q9GZP0
• Protein name: Platelet-derived growth factor D (PDGF-D) (Iris-expressed growth factor) (Spinal cord-derived growth factor B) (SCDGF-B) [Cleaved into: Platelet-derived growth factor D, latent form (PDGFD latent form); Platelet-derived growth factor D, receptor-binding f
• Protein function: Growth factor that plays an essential role in the regulation of embryonic development, cell proliferation, cell migration, survival and chemotaxis. Potent mitogen for cells of mesenchymal origin. Plays an important role in wound healing. Induces
• Family and domains:

  Pfam

  Accession	ID	Position in sequence	Description	Type
  PF00431	CUB	53 → 167	CUB domain	Domain
  PF00341	PDGF	272 → 362	PDGF/VEGF domain	Domain

• Sequence:

  MHRLIFVYTLICANFCSCRDTSATPQSASIKALRNANLRRDESNHLTDLYRRDETIQVKG
  NGYVQSPRFPNSYPRNLLLTWRLHSQENTRIQLVFDNQFGLEEAENDICRYDFVEVEDIS
  ETSTIIRGRWCGHKEVPPRIKSRTNQIKITFKSDDYFVAKPGFKIYYSLLEDFQPAAASE
  TNWESVTSSISGVSYNSPSVTDPTLIADALDKKIAEFDTVEDLLKYFNPESWQEDLENMY
  LDTPRYRGRSYHDRKSKVDLDRLNDDAKRYSCTPRNYSVNIREELKLANVVFFPRCLLVQ
  RCGGNCGCGTVNWRSCTCNSGKTVKKYHEVLQFEPGHIKRRGRAKTMALVDIQLDHHERC
  DCICSSRPPR

• Sequence length: 370

Pathways

KEGG:

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
Regulation of actin cytoskeleton
Prostate cancer
Melanoma
Choline metabolism in cancer

Reactome:

Signaling by PDGF

Associated diseases

Causal
Disease name	Disease term	dbSNP ID	References
Colorectal cancer	Colorectal Carcinoma	rs137854568, rs137854573, rs137854575, rs387906234, rs1801155, rs121908380, rs121908702, rs267606674, rs4939827, rs794729661, rs121909055, rs281865417, rs267606884, rs28934575, rs587776769, rs104893815, rs587776800, rs63750198, rs63751109, rs863223312, rs63750710, rs63751615, rs63750206, rs63750781, rs63750899, rs63750691, rs63750217, rs121912965, rs63749939, rs63751194, rs63750693, rs63750540, rs63751221, rs193922370, rs80359596, rs397514632, rs483352909, rs200495564, rs397514684, rs397516436, rs398122386, rs79512956, rs74953290, rs587779001, rs63750677, rs63749837, rs267607816, rs63751715, rs267607819, rs267607815, rs267607822, rs63749906, rs587778883, rs63750472, rs63751012, rs63750715, rs63750580, rs267607706, rs267607709, rs267607710, rs587778894, rs63750749, rs63750483, rs63751015, rs63751153, rs63751094, rs63751118, rs63750316, rs63749981, rs587778906, rs267607821, rs587778908, rs63750020, rs587778909, rs63750713, rs267607825, rs63751592, rs281864936, rs587778913, rs587778914, rs63749795, rs63750855, rs63749916, rs63749923, rs63751472, rs63751689, rs267607832, rs267607837, rs267607836, rs587778923, rs63750028, rs587778928, rs587778929, rs587778930, rs63751277, rs587778933, rs267607842, rs267607843, rs63750192, rs587778934, rs63750193, rs587778937, rs587778938, rs267607845, rs63751244, rs63751393, rs63751460, rs267607849, rs267607853, rs267607856, rs267607850, rs63751657, rs267607854, rs267607852, rs587778942, rs63750309, rs63750587, rs63749863, rs63751486, rs63750016, rs63749868, rs63750375, rs63750035, rs63750604, rs63750386, rs63750150, rs63750486, rs63751428, rs267607866, rs63749986, rs63751594, rs63750152, rs63750850, rs267607867, rs267607868, rs63751632, rs267607871, rs63751892, rs587778956, rs63750469, rs587778958, rs63749792, rs267607875, rs63751255, rs281864938, rs63751202, rs63750726, rs63751310, rs63749900, rs587778964, rs267607879, rs267607878, rs587778966, rs267607883, rs267607887, rs63750061, rs63750663, rs587778968, rs587778971, rs63750809, rs63749867, rs63750864, rs587778972, rs63751275, rs267607718, rs267607722, rs63750769, rs267607717, rs587778973, rs267607716, rs267607720, rs63749995, rs63750859, rs587778975, rs63750114, rs587778976, rs63750603, rs267607889, rs267607723, rs63750561, rs63750499, rs63751642, rs63751022, rs587778981, rs63750971, rs267607898, rs267607906, rs267607903, rs587778989, rs587778992, rs267607894, rs267607901, rs267607892, rs63750437, rs587778997, rs587778998, rs63750005, rs63750641, rs63751421, rs11541859, rs63750266, rs111052004, rs267607726, rs267607727, rs63750453, rs267607734, rs267607735, rs63751665, rs267607736, rs267607732, rs63749816, rs63750539, rs267607739, rs587779006, rs587779008, rs267607745, rs267607742, rs63751595, rs267607743, rs587779010, rs587779012, rs63750057, rs63749818, rs63751124, rs587779014, rs587779015, rs63749820, rs63751302, rs267607750, rs267607751, rs267607749, rs63750891, rs63749959, rs63749804, rs267607765, rs267607760, rs587779021, rs267607759, rs63750515, rs587779023, rs63751021, rs63751480, rs267607772, rs267607773, rs587779024, rs63751653, rs587779027, rs267607767, rs587779029, rs63750706, rs63750385, rs267607774, rs267607778, rs267607780, rs587779034, rs63751711, rs267607784, rs587779035, rs63750823, rs63750822, rs267607787, rs63750303, rs63749839, rs63749827, rs267607789, rs267607790, rs267607791, rs267607786, rs267607771, rs267607795, rs267607794, rs267607788, rs267607799, rs267607801, rs587779045, rs63750034, rs587779047, rs63750216, rs63751707, rs63751598, rs267607803, rs267607777, rs63750144, rs267607805, rs63750547, rs63750489, rs63750993, rs587779054, rs63751259, rs63749926, rs63750796, rs587779058, rs63750745, rs63750582, rs180177084, rs587779866, rs200389141, rs587779950, rs587780104, rs587780183, rs587778536, rs587780683, rs587781554, rs267607712, rs587777627, rs587783057, rs730881734, rs41542214, rs730881273, rs786203456, rs786201990, rs786202767, rs748005072, rs786204317, rs786204318, rs797045117, rs63750549, rs863225383, rs863225384, rs863225373, rs863225376, rs863225377, rs863225378, rs863225379, rs863225380, rs863225381, rs63750059, rs267607823, rs864622457, rs869312767, rs869312753, rs876661059, rs876658915, rs876658923, rs876660860, rs876660822, rs876660458, rs876660214, rs876658657, rs876658247, rs876659226, rs876658821, rs876660589, rs876659068, rs876659681, rs876659608, rs878853794, rs878853778, rs878853780, rs878853785, rs886039423, rs886039424, rs1057517543, rs1057517541, rs756843954, rs1057517617, rs1057517558, rs1057519256, rs1060500689, rs764085979, rs1060500707, rs1060500699, rs1060500706, rs1060500703, rs1064795341, rs1064793607, rs1064794348, rs1064795441, rs1064794373, rs1064793172, rs1064794122, rs1064795515, rs1064794331, rs63750978, rs1114167435, rs1553641362, rs63751448, rs1553648029, rs1553648058, rs587778903, rs1553653237, rs1553664353, rs267607744, rs1553647995, rs1553648047, rs1553653084, rs1553663750, rs1553664436, rs1553488015, rs1553637293, rs63750310, rs63750443, rs63751596, rs1553646681, rs550890395, rs1064796057, rs1553642079, rs1553648023, rs587782087, rs746536721, rs1553653037, rs1248251121, rs1553646602, rs1434898623, rs1553665683, rs1553648068, rs1553645331, rs1553644123, rs1553658246, rs1553651299, rs1553648149, rs1553663159, rs1302248679, rs1553664119, rs1553658009, rs1553665977, rs1416171624, rs1553663834, rs1553664617, rs1553664702, rs1553647969, rs1553648040, rs1437454428, rs1553641273, rs63751101, rs1553646764, rs1553648225, rs1554082118, rs1553648201, rs1553149467, rs1553638868, rs1553665866, rs376736188, rs1553642707, rs1553645226, rs1553652883, rs63751435, rs1553653115, rs1553653195, rs63750300, rs1553662622, rs1553658104, rs1553648220, rs1559544064, rs63750584, rs267608083, rs1559551570, rs1559575107, rs1559553501, rs1565986506, rs1559524405, rs1559553492, rs1559554339, rs1559588540, rs1559558071, rs761329565, rs1559521039, rs1559574795, rs1567221417, rs1559578422, rs1481129490, rs1570714352, rs779783209, rs1575376830, rs1575469070, rs1575537843, rs1575620443, rs1575621506, rs587779022, rs1575414904, rs1575449093, rs1575469505, rs1575536254, rs1575537933, rs1575632112, rs1575639851, rs1575441094, rs1575449402, rs267607831, rs2081922847, rs2083403132, rs2085415927, rs2085469647, rs2043913790, rs147542208
Coronary artery disease	Coronary Artery Disease	rs137852988, rs121918313, rs121918529, rs121918531, rs137852340, rs405509, rs1555800701, rs1215189537	21378988
Leukemia	Leukemia, Myelocytic, Acute	rs121909646, rs121913488, rs587776834, rs752746786, rs869312821, rs767454740, rs1554564297, rs11978267, rs4132601	27903959

Unknown
Disease name	Disease term	dbSNP ID	References
Cirrhosis	Cirrhosis	rs119465999, rs144369314, rs8056684, rs112053857, rs75998507	25280005
Coronary arteriosclerosis	Coronary Arteriosclerosis		21378988