Variant report

Variant	rs774993
Chromosome Location	chr4:95417665-95417666
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:95413064..95415456-chr4:95417034..95419841,2	K562	blood:
2	chr4:95410422..95412856-chr4:95417463..95420295,3	K562	blood:
3	chr4:95416638..95418226-chr4:95442699..95445455,2	K562	blood:

Variant related genes	Relation type
ENSG00000163110	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs1082514	1.00[ASN][1000 genomes]
rs17379209	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2555216	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2639793	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2639795	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35793531	0.88[ASN][1000 genomes]
rs3805301	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs5002911	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs699861	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73833924	1.00[ASN][1000 genomes]
rs774983	0.94[ASN][1000 genomes]
rs774988	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs774989	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv993495	chr4:94992315-95482578	Weak transcription Genic enhancers Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv594901	chr4:95254730-95493246	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
3	nsv1003743	chr4:95255957-95469831	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs774993	PDLIM5	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:65 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:95375000-95440200	Weak transcription	Primary T cells from cord blood	blood
2	chr4:95387400-95420800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr4:95394400-95419200	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr4:95394400-95428000	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr4:95396600-95419000	Weak transcription	Duodenum Mucosa	Duodenum
6	chr4:95398400-95428400	Weak transcription	Small Intestine	intestine
7	chr4:95400800-95440000	Weak transcription	Lung	lung
8	chr4:95401800-95420800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr4:95403800-95417800	Weak transcription	HepG2	liver
10	chr4:95405000-95429000	Weak transcription	Primary hematopoietic stem cells	blood
11	chr4:95406000-95419800	Weak transcription	GM12878-XiMat	blood
12	chr4:95407200-95428000	Weak transcription	Placenta	Placenta
13	chr4:95408000-95428000	Weak transcription	K562	blood
14	chr4:95408200-95422000	Weak transcription	Fetal Muscle Trunk	muscle
15	chr4:95409000-95422000	Weak transcription	Ovary	ovary
16	chr4:95409400-95419000	Weak transcription	Aorta	Aorta
17	chr4:95410200-95422000	Weak transcription	Right Atrium	heart
18	chr4:95411000-95427800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr4:95412400-95422000	Weak transcription	Liver	Liver
20	chr4:95412400-95424600	Weak transcription	Colon Smooth Muscle	Colon
21	chr4:95412800-95426000	Weak transcription	Rectal Smooth Muscle	rectum
22	chr4:95412800-95428400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
23	chr4:95413000-95426200	Weak transcription	Stomach Smooth Muscle	stomach
24	chr4:95413200-95417800	Weak transcription	Stomach Mucosa	stomach
25	chr4:95413200-95418200	Weak transcription	Pancreatic Islets	Pancreatic Islet
26	chr4:95413200-95427400	Weak transcription	A549	lung
27	chr4:95413200-95428000	Weak transcription	Hela-S3	cervix
28	chr4:95413400-95419200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr4:95413400-95425800	Weak transcription	HSMMtube	muscle
30	chr4:95413400-95428000	Weak transcription	NH-A	brain
31	chr4:95413400-95428400	Weak transcription	NHLF	lung
32	chr4:95413600-95418000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr4:95413600-95418200	Weak transcription	NHEK	skin
34	chr4:95413600-95421800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr4:95413600-95425600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr4:95413800-95418800	Weak transcription	HMEC	breast
37	chr4:95414600-95429000	Weak transcription	Esophagus	oesophagus
38	chr4:95414800-95419000	Weak transcription	HUES6 Cell Line	embryonic stem cell
39	chr4:95415400-95418600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr4:95415400-95420800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr4:95415400-95420800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr4:95415400-95425800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr4:95415400-95429000	Weak transcription	Fetal Muscle Leg	muscle
44	chr4:95415400-95440200	Weak transcription	Primary T helper cells fromperipheralblood	blood
45	chr4:95416000-95421000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
46	chr4:95416200-95418400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
47	chr4:95416200-95419000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
48	chr4:95416200-95427400	Weak transcription	Fetal Intestine Large	intestine
49	chr4:95416400-95420000	Enhancers	Fetal Heart	heart
50	chr4:95416400-95425600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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