Annotation Detail for PDCD4

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Basic Information Top

Gene Symbol:	PDCD4 ( H731,MGC33046,MGC33047 )
Gene Full Name:	programmed cell death 4 (neoplastic transformation inhibitor)
Band:	10q25.2
Quick Links	Entrez ID:27250; OMIM: 608610; Uniprot ID:PDCD4_HUMAN; ENSEMBL ID: ENSG00000150593; HGNC ID: 8763
Relate to Another Database:	SFARIGene; denovo-db

General

Expression

Regulation

Pathways, Diseases and Drugs

PTM

TF binding site

miRNA targets

Cis-NATs

Post Translation Modification

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PTM Sites from Uniprot:11 results
Experimental PTM Sites from dbPTM:9 results
Predicted PTM Sites by profile HMM from dbPTM:18 results

Location(AA)	Modification
64	Nuclear localization signal (Potential).
67	Phosphoserine; by PKB and RPS6KB1.
76	Phosphoserine.
76	Phosphodegron.
78	Phosphoserine.
80	Phosphoserine.
93	Phosphothreonine.
94	Phosphoserine.
152	Phosphotyrosine.
250	Nuclear localization signal (Potential).
457	Phosphoserine; by PKB.

Location(AA)	Modifications	Resource
67	Phosphoserine (PKB
76	Phosphoserine.	Swiss-Prot 53.0
76	Phosphoserine	Phospho.ELM 6.0
93	Phosphothreonine.	Swiss-Prot 53.0
94	Phosphoserine	Phospho.ELM 6.0
152	Phosphotyrosine.	Swiss-Prot 53.0
405	Phosphotyrosine	Phospho.ELM 6.0
457	Phosphoserine.	Swiss-Prot 53.0
457	Phosphoserine (PKB

Location(AA)	Modification	Resource
66	N-linked	HMM predict
76	Phosphoserine(IKK)	HMM predict
94	Phosphoserine(CDC2)	HMM predict
143	Sulfotyrosine	HMM predict
143	Phosphotyrosine(INSR)	HMM predict
152	Phosphotyrosine(Syk)	HMM predict
152	Phosphotyrosine(SRC)	HMM predict
214	Phosphoserine(PKG)	HMM predict
282	Sulfotyrosine	HMM predict
285	Phosphothreonine(PKC)	HMM predict
313	Phosphoserine(PKA)	HMM predict
341	Phosphoserine(ATM)	HMM predict
345	Phosphoserine(CK2)	HMM predict
409	Phosphotyrosine(EGFR)	HMM predict
409	Phosphotyrosine(Syk)	HMM predict
455	Phenylalanine	HMM predict
456	Phenylalanine	HMM predict
457	Phenylalanine	HMM predict

Validated transcription factor binding site by ChIP-Chip and ChIP-Seq

RefSeq ID: NM_014456
Location:chr10 112621585-112649752
strand:+

Upstream the gene:15 results
Downstream the gene:28 results
Inside the gene:8 results

Transcrip Factors	Experimental Cell	Database	TF Binding Start	TF Binding End	TF Binding Length	The Distance to Gene
Fos	K562	GSE19551	112621309	112621796	487	33
RARA	MCF7	GSE15244	112606977	112607774	797	14210
RARA	MCF7	GSE15244	112620400	112621178	778	797
RARG	MCF7	GSE15244	112620491	112621142	651	769
Rb	Quiescent	GSE19898	112621228	112621607	379	168
TAF	k562	GSE8489	112619294	112619550	256	2164
TAF	k562	GSE8489	112620400	112621214	814	779
TFAP2C	MCF7	GSE21234	112601848	112602453	605	19435
USF1	HepG2	E	112609366	112610240	874	11783
hScc1	Bcell	GSE12603	112609011	112609186	175	12487
hScc1	CdLS	GSE12603	112617449	112617647	198	4038
p130	Quiescent	GSE19898	112621254	112621572	318	173
p130	shRbQuiescent	GSE19898	112621174	112621613	439	192
p130	shRbSenescent	GSE19898	112620931	112621591	660	325
p63	keratinocytes	GSE17611	112611579	112612674	1095	9459

Transcrip Factors	Experimental Cell	Database	TF Binding Start	TF Binding End	TF Binding Length	The Distance to Gene
ETS1	Jurkat	GSE17954	112667927	112669550	1623	18986
FOXA1	MCF7	GSE15244	112666117	112666725	608	16669
Fos	K562	GSE19551	112652049	112652294	245	2419
GABP	Hela	GSE8489	112668637	112669060	423	19096
H3K4me2	HCT116	GSE10453	112666789	112668048	1259	17666
H3ac	HepG2	E	112667048	112668228	1180	17886
H3ac	HepG2	E	112668566	112668992	426	19027
KLF4	hES	GSE17917	112668946	112669419	473	19430
P300	T30-glioblastoma	GSE21026	112651758	112652705	947	2479
P300	T30-glioblastoma	GSE21026	112668034	112669893	1859	19211
PHF8	293T	GSE20725	112668065	112670038	1973	19299
PHF8	HeLa	GSE20725	112667961	112669939	1978	19198
PHF8	Hs68minusFBS	GSE20725	112668101	112669066	965	18831
PHF8	Hs68minusFBS	GSE20725	112669192	112669915	723	19801
PolII	HeLa	GSE12783	112667615	112670807	3192	19459
RARA	MCF7	GSE15244	112666049	112666725	676	16635
RARA	MCF7	GSE15244	112668601	112669028	427	19062
RARG	MCF7	GSE15244	112666154	112666690	536	16670
RARG	MCF7	GSE15244	112668670	112669028	358	19097
Rb	Growing	GSE19898	112668961	112669207	246	19332
Rb	Senescent	GSE19898	112668972	112669216	244	19342
TFAP2C	MCF7	GSE21234	112668526	112669419	893	19220
USF2	HepG2	E	112668521	112668992	471	19004
hScc1	Bcell	GSE12603	112669243	112669789	546	19764
p130	Quiescent	GSE19898	112668296	112668917	621	18854
p130	Senescent	GSE19898	112668301	112669287	986	19042
p130	shRbQuiescent	GSE19898	112668163	112669187	1024	18923
p130	shRbSenescent	GSE19898	112668292	112669234	942	19011

Transcrip Factors	Experimental Cell	Database	TF Binding Start	TF Binding End	TF Binding Length
H3K4me3	colorectal	cancer	112622490	112623250	760
Oct1	Hela	GSE14283	112631439	112631474	35
TAF	k562	GSE8489	112622537	112623500	963
hScc1	Bcell	GSE12603	112621317	112622109	792
hScc1	Bcell	GSE12603	112643241	112643702	461
hScc1	CdLS	GSE12603	112621142	112623046	1904
hScc1	CdLS	GSE12603	112642931	112643734	803
p130	shRbSenescent	GSE19898	112621922	112622260	338

Validated miRNA targets

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miR Walk:148 results
Tarbase V5.0:5 results

Micro RNA Name	Stem Loop Name	The chromosome that miRNA located	Publication
hsa-miR-1	hsa-mir-1-2	18	20959496
hsa-miR-1	hsa-mir-1-1	20	20959496
hsa-miR-1	hsa-mir-1-2	18	15685193
hsa-miR-1	hsa-mir-1-1	20	15685193
hsa-miR-10b	hsa-mir-10b	2	19593777
hsa-miR-10b*	hsa-mir-10b	2	19593777
hsa-miR-124	hsa-mir-124-1	8	15685193
hsa-miR-124	hsa-mir-124-2	8	15685193
hsa-miR-124	hsa-mir-124-3	20	15685193
hsa-miR-125b	hsa-mir-125b-1	11	19593777
hsa-miR-125b	hsa-mir-125b-2	21	19593777
hsa-miR-133a	hsa-mir-133a-1	18	20959496
hsa-miR-133a	hsa-mir-133a-2	20	20959496
hsa-miR-133b	hsa-mir-133b	6	20959496
hsa-miR-141	hsa-mir-141	12	19593777
hsa-miR-141*	hsa-mir-141	12	19593777
hsa-miR-148a	hsa-mir-148a	7	21088996
hsa-miR-148a*	hsa-mir-148a	7	21088996
hsa-miR-155	hsa-mir-155	21	19641183
hsa-miR-155*	hsa-mir-155	21	19641183
hsa-miR-15a	hsa-mir-15a	13	18362358
hsa-miR-15a*	hsa-mir-15a	13	18362358
hsa-miR-16	hsa-mir-16-1	13	18362358
hsa-miR-16	hsa-mir-16-2	3	18362358
hsa-miR-16-1*	hsa-mir-16-1	13	18362358
hsa-miR-181a	hsa-mir-181a-2	9	21271219
hsa-miR-181a	hsa-mir-181a-1	1	21271219
hsa-miR-183	hsa-mir-183	7	20602797
hsa-miR-183*	hsa-mir-183	7	20602797
hsa-miR-200b	hsa-mir-200b	1	19593777
hsa-miR-200b*	hsa-mir-200b	1	19593777
hsa-miR-200c	hsa-mir-200c	12	19593777
hsa-miR-200c*	hsa-mir-200c	12	19593777
hsa-miR-205	hsa-mir-205	1	19593777
hsa-miR-21	hsa-mir-21	17	21326627
hsa-miR-21	hsa-mir-21	17	21317927
hsa-miR-21	hsa-mir-21	17	21295561
hsa-miR-21	hsa-mir-21	17	21273303
hsa-miR-21	hsa-mir-21	17	21271219
hsa-miR-21	hsa-mir-21	17	21088996
hsa-miR-21	hsa-mir-21	17	20978511
hsa-miR-21	hsa-mir-21	17	20959496
hsa-miR-21	hsa-mir-21	17	20831814
hsa-miR-21	hsa-mir-21	17	20693317
hsa-miR-21	hsa-mir-21	17	20581857
hsa-miR-21	hsa-mir-21	17	20560046
hsa-miR-21	hsa-mir-21	17	20462046
hsa-miR-21	hsa-mir-21	17	20447717
hsa-miR-21	hsa-mir-21	17	20417062
hsa-miR-21	hsa-mir-21	17	20372781
hsa-miR-21	hsa-mir-21	17	20219857
hsa-miR-21	hsa-mir-21	17	20148895
hsa-miR-21	hsa-mir-21	17	20143188
hsa-miR-21	hsa-mir-21	17	20141427
hsa-miR-21	hsa-mir-21	17	20092645
hsa-miR-21	hsa-mir-21	17	19946272
hsa-miR-21	hsa-mir-21	17	19906824
hsa-miR-21	hsa-mir-21	17	19836969
hsa-miR-21	hsa-mir-21	17	19682430
hsa-miR-21	hsa-mir-21	17	19672202
hsa-miR-21	hsa-mir-21	17	19633292
hsa-miR-21	hsa-mir-21	17	19593777
hsa-miR-21	hsa-mir-21	17	19509156
hsa-miR-21	hsa-mir-21	17	19473551
hsa-miR-21	hsa-mir-21	17	19419954
hsa-miR-21	hsa-mir-21	17	19336275
hsa-miR-21	hsa-mir-21	17	19308091
hsa-miR-21	hsa-mir-21	17	19302977
hsa-miR-21	hsa-mir-21	17	19296468
hsa-miR-21	hsa-mir-21	17	19276261
hsa-miR-21	hsa-mir-21	17	19264808
hsa-miR-21	hsa-mir-21	17	19158092
hsa-miR-21	hsa-mir-21	17	19013014
hsa-miR-21	hsa-mir-21	17	18850008
hsa-miR-21	hsa-mir-21	17	18548003
hsa-miR-21	hsa-mir-21	17	18372920
hsa-miR-21	hsa-mir-21	17	18270520
hsa-miR-21	hsa-mir-21	17	17991735
hsa-miR-21	hsa-mir-21	17	17968323
hsa-miR-21	hsa-mir-21	17	19641183
hsa-miR-21*	hsa-mir-21	17	21326627
hsa-miR-21*	hsa-mir-21	17	21317927
hsa-miR-21*	hsa-mir-21	17	21295561
hsa-miR-21*	hsa-mir-21	17	21273303
hsa-miR-21*	hsa-mir-21	17	21271219
hsa-miR-21*	hsa-mir-21	17	21088996
hsa-miR-21*	hsa-mir-21	17	20978511
hsa-miR-21*	hsa-mir-21	17	20959496
hsa-miR-21*	hsa-mir-21	17	20831814
hsa-miR-21*	hsa-mir-21	17	20693317
hsa-miR-21*	hsa-mir-21	17	20581857
hsa-miR-21*	hsa-mir-21	17	20560046
hsa-miR-21*	hsa-mir-21	17	20462046
hsa-miR-21*	hsa-mir-21	17	20447717
hsa-miR-21*	hsa-mir-21	17	20417062
hsa-miR-21*	hsa-mir-21	17	20372781
hsa-miR-21*	hsa-mir-21	17	20219857
hsa-miR-21*	hsa-mir-21	17	20148895
hsa-miR-21*	hsa-mir-21	17	20143188
hsa-miR-21*	hsa-mir-21	17	20141427
hsa-miR-21*	hsa-mir-21	17	20092645
hsa-miR-21*	hsa-mir-21	17	19946272
hsa-miR-21*	hsa-mir-21	17	19906824
hsa-miR-21*	hsa-mir-21	17	19836969
hsa-miR-21*	hsa-mir-21	17	19682430
hsa-miR-21*	hsa-mir-21	17	19672202
hsa-miR-21*	hsa-mir-21	17	19633292
hsa-miR-21*	hsa-mir-21	17	19593777
hsa-miR-21*	hsa-mir-21	17	19509156
hsa-miR-21*	hsa-mir-21	17	19473551
hsa-miR-21*	hsa-mir-21	17	19419954
hsa-miR-21*	hsa-mir-21	17	19336275
hsa-miR-21*	hsa-mir-21	17	19308091
hsa-miR-21*	hsa-mir-21	17	19302977
hsa-miR-21*	hsa-mir-21	17	19296468
hsa-miR-21*	hsa-mir-21	17	19276261
hsa-miR-21*	hsa-mir-21	17	19264808
hsa-miR-21*	hsa-mir-21	17	19158092
hsa-miR-21*	hsa-mir-21	17	19013014
hsa-miR-21*	hsa-mir-21	17	18850008
hsa-miR-21*	hsa-mir-21	17	18548003
hsa-miR-21*	hsa-mir-21	17	18372920
hsa-miR-21*	hsa-mir-21	17	18270520
hsa-miR-21*	hsa-mir-21	17	17991735
hsa-miR-21*	hsa-mir-21	17	17968323
hsa-miR-21*	hsa-mir-21	17	19641183
hsa-miR-221	hsa-mir-221	X	20417062
hsa-miR-221*	hsa-mir-221	X	20417062
hsa-miR-222	hsa-mir-222	X	20417062
hsa-miR-222*	hsa-mir-222	X	20417062
hsa-miR-29a	hsa-mir-29a	7	20959496
hsa-miR-29a*	hsa-mir-29a	7	20959496
hsa-miR-29b	hsa-mir-29b-1	7	20959496
hsa-miR-29b	hsa-mir-29b-2	1	20959496
hsa-miR-29b-1*	hsa-mir-29b-1	7	20959496
hsa-miR-29b-2*	hsa-mir-29b-2	1	20959496
hsa-miR-29c	hsa-mir-29c	1	20959496
hsa-miR-29c*	hsa-mir-29c	1	20959496
hsa-miR-30a	hsa-mir-30a	6	19593777
hsa-miR-30a*	hsa-mir-30a	6	19593777
hsa-miR-30e	hsa-mir-30e	1	19593777
hsa-miR-30e*	hsa-mir-30e	1	19593777
hsa-miR-373	hsa-mir-373	19	15685193
hsa-miR-373*	hsa-mir-373	19	15685193
hsa-miR-375	hsa-mir-375	2	21088996
hsa-miR-663	hsa-mir-663	20	20637737
hsa-miR-92a	hsa-mir-92a-1	13	20959496
hsa-miR-92a	hsa-mir-92a-2	X	20959496

ID in Tarbase	Data Type	Support Type	miRNA	Gene	Direct Support	Publication
194	Unknown	MicroArray	miR-1	PDCD4	n_a	15685193
536	mRNA repression	TRUE	miR-21	PDCD4	Luciferase assay	17968323
537	mRNA cleavage	TRUE	miR-21	PDCD4	Luciferase assay	17991735
538	Unknown	TRUE	miR-21	PDCD4	Luciferase assay - Seed deletion	18270520
540	Unknown	TRUE	miR-21	PDCD4	Reporter assay	18372920
Ensembl	Protein Type	Differentially expressed in	Pathology or Event	Mis Regulation	Gene Expression	Tumour Involvement
ENSG00000150593		"cardiac and skeletal muscles, cardiogenesis"	n_a	n_a	"squamous cell, lymphocyte, muscle cell"	"benign tumour, malignant tumour, carcinoma, leukaemia, sarcoma"
ENSG00000150593		"cell invasion and tumor metastasis, G1-to-S transition"	n_a	n_a	"squamous cell, lymphocyte, muscle cell"	"benign tumour, malignant tumour, carcinoma, leukaemia, sarcoma"
ENSG00000150593		"cell invasion and tumor metastasis, G1-to-S transition"	tumor cell proliferation	up regulated	"squamous cell, lymphocyte, muscle cell"	"benign tumour, malignant tumour, carcinoma, leukaemia, sarcoma"
ENSG00000150593		"cell invasion and tumor metastasis, G1-to-S transition"	metastatic breast tumor	up regulated	"squamous cell, lymphocyte, muscle cell"	"benign tumour, malignant tumour, carcinoma, leukaemia, sarcoma"
ENSG00000150593		"cell invasion and tumor metastasis, G1-to-S transition"	n_a	n_a	"squamous cell, lymphocyte, muscle cell"	"benign tumour, malignant tumour, carcinoma, leukaemia, sarcoma"

Cis-Nats regulation

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Cluster ID	Plue Type	Plus Gene Name	Plus Chromosome	Plus Start	Plus End	Overlap Length	Minus Type	Minus Gene Name	Minus Chromosome	Minus Star	Minus End	Type
3672	mRNA	PDCD4	chr10	112621585	112649753	1276	mRNA	LOC92482	chr10	112648477	112668934	Sense/Antisense (SA) pairs

Simple Query:

Syndromic Genes

Non-syndromic Genes

AutismKB Statistics

Studies: 1,036
Genes: 1,379
CNVs/SVs: 5,420
SNVs/Indels: 11,669
de novo Mutations: 5,669
Mosaics: 789
Linkage Regions: 172

Paper Collected: 6/30/2018

Last Update: 8/26/2018

AutismKB 2.0

Annotation Detail for PDCD4

Simple Query:

Syndromic Genes

Non-syndromic Genes

AutismKB Statistics