Variant report

Variant	rs6115249
Chromosome Location	chr20:25655789-25655790
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:4)
CpG islands
(count:0)
Chromatin interactive
region (count:2)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:4 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr20:25655619-25655923	MCF-7	breast:	n/a	n/a
2	POLR2A	chr20:25655738-25655830	Hela-S3	cervix:	n/a	n/a
3	POLR2A	chr20:25655605-25656653	K562	blood:	n/a	n/a
4	POLR2A	chr20:25654971-25657550	Hela-S3	cervix:	n/a	n/a

No data

(count:2 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:25603937..25605836-chr20:25653672..25656998,3	MCF-7	breast:
2	chr20:25650621..25655076-chr20:25655706..25658841,4	MCF-7	breast:

(count:1 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-GINS1-1	chr20:25654488-25658710	ENSG00000213742.2

No data

Variant related genes	Relation type
MED28P7	TF binding region
ENSG00000213742	Chromatin interaction
ENSG00000236542	Chromatin interaction
ENSG00000170191	Chromatin interaction

Extended variants
information (count: 5 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs13044759	1.00[CHB][hapmap]
rs6076383	1.00[CHB][hapmap];1.00[MEX][hapmap]
rs6115203	1.00[CHB][hapmap]
rs7343858	1.00[CHB][hapmap];1.00[MEX][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv912834	chr20:25615272-25756336	Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:25650600-25655800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr20:25650600-25657000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr20:25651600-25659600	Strong transcription	Fetal Brain Female	brain
4	chr20:25652000-25659600	Strong transcription	Brain Germinal Matrix	brain
5	chr20:25652600-25658800	Strong transcription	Fetal Stomach	stomach
6	chr20:25653000-25657000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr20:25653000-25663600	Strong transcription	HSMM	muscle
8	chr20:25653200-25655800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr20:25653200-25656800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr20:25653200-25657400	Strong transcription	ES-I3 Cell Line	embryonic stem cell
11	chr20:25653200-25657400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr20:25653200-25659600	Strong transcription	Fetal Intestine Small	intestine
13	chr20:25653200-25662800	Strong transcription	Fetal Lung	lung
14	chr20:25653400-25656800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr20:25653400-25656800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
16	chr20:25653400-25656800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr20:25653400-25656800	Strong transcription	NH-A	brain
18	chr20:25653400-25657000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr20:25653400-25657400	Strong transcription	A549	lung
20	chr20:25653400-25657600	Strong transcription	Cortex derived primary cultured neurospheres	brain
21	chr20:25653400-25657600	Strong transcription	Brain Substantia Nigra	brain
22	chr20:25653400-25657800	Strong transcription	HUES48 Cell Line	embryonic stem cell
23	chr20:25653400-25658200	Strong transcription	Duodenum Mucosa	Duodenum
24	chr20:25653400-25658600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr20:25653400-25658800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
26	chr20:25653400-25659200	Strong transcription	Primary hematopoietic stem cells	blood
27	chr20:25653400-25659400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
28	chr20:25653400-25659600	Strong transcription	Brain Angular Gyrus	brain
29	chr20:25653400-25659600	Strong transcription	Fetal Muscle Trunk	muscle
30	chr20:25653400-25659600	Strong transcription	Ovary	ovary
31	chr20:25653400-25659600	Strong transcription	Skeletal Muscle Male	skeletal muscle
32	chr20:25653400-25659600	Strong transcription	Skeletal Muscle Female	skeletal muscle
33	chr20:25653400-25661000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr20:25653400-25662400	Strong transcription	Liver	Liver
35	chr20:25653400-25663600	Strong transcription	Dnd41	blood
36	chr20:25653400-25664200	Strong transcription	Stomach Smooth Muscle	stomach
37	chr20:25653600-25656600	Strong transcription	Brain Anterior Caudate	brain
38	chr20:25653600-25656800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
39	chr20:25653600-25657000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
40	chr20:25653600-25657000	Strong transcription	Muscle Satellite Cultured Cells	--
41	chr20:25653600-25657000	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
42	chr20:25653600-25657000	Strong transcription	HMEC	breast
43	chr20:25653600-25657000	Strong transcription	NHDF-Ad	bronchial
44	chr20:25653600-25657000	Strong transcription	NHEK	skin
45	chr20:25653600-25657400	Strong transcription	Pancreas	Pancrea
46	chr20:25653600-25657600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
47	chr20:25653600-25657600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr20:25653600-25657600	Strong transcription	Brain Cingulate Gyrus	brain
49	chr20:25653600-25657600	Strong transcription	Colon Smooth Muscle	Colon
50	chr20:25653600-25657600	Strong transcription	Esophagus	oesophagus

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