Variant report

Variant	rs9386565
Chromosome Location	chr6:106997897-106997898
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:106990837..106993931-chr6:106996769..107001251,4	K562	blood:

Variant related genes	Relation type
ENSG00000112297	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs1111830	1.00[CHB][hapmap]
rs1613722	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs1616375	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs1676008	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1676010	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1676023	0.82[ASN][1000 genomes]
rs1676024	0.89[ASN][1000 genomes]
rs1676025	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1676028	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs17067603	1.00[JPT][hapmap]
rs17565194	1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1770718	1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs1770719	0.89[ASN][1000 genomes]
rs1770721	1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs1770722	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs1770723	0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1770733	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1799693	0.82[CEU][hapmap];0.91[TSI][hapmap];0.90[EUR][1000 genomes]
rs2054366	0.91[MEX][hapmap]
rs2066201	0.89[ASN][1000 genomes]
rs2247335	1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs2615209	0.96[ASN][1000 genomes]
rs3747789	1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[TSI][hapmap];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3804344	1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[TSI][hapmap]
rs4946762	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.82[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4946764	0.91[MEX][hapmap]
rs6902745	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs6906338	0.82[CEU][hapmap]
rs6911321	0.85[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[TSI][hapmap]
rs72945076	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7741101	0.83[MKK][hapmap]
rs7771502	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs783395	0.82[CEU][hapmap];1.00[CHB][hapmap];0.87[EUR][1000 genomes]
rs783396	0.82[CEU][hapmap];1.00[CHB][hapmap];0.85[TSI][hapmap];0.87[EUR][1000 genomes]
rs783401	0.82[CEU][hapmap];1.00[CHB][hapmap];0.87[EUR][1000 genomes]
rs783414	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs9486400	0.86[TSI][hapmap]

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	nsv932155	chr6:106281728-107030467	Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv532047	chr6:106591482-107143252	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	nsv870375	chr6:106696090-107047892	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:106961000-107001400	Weak transcription	Gastric	stomach
2	chr6:106964800-107029800	Weak transcription	Small Intestine	intestine
3	chr6:106970600-107022400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr6:106979000-107001400	Weak transcription	Pancreas	Pancrea
5	chr6:106982400-107000800	Weak transcription	Rectal Smooth Muscle	rectum
6	chr6:106985800-107019200	Weak transcription	Aorta	Aorta
7	chr6:106988200-107001400	Weak transcription	Lung	lung
8	chr6:106991200-106999600	Strong transcription	Dnd41	blood
9	chr6:106993600-106998400	Enhancers	Primary monocytes fromperipheralblood	blood
10	chr6:106994000-107017800	Weak transcription	Skeletal Muscle Female	skeletal muscle
11	chr6:106994200-107000200	Weak transcription	Esophagus	oesophagus
12	chr6:106994200-107009000	Weak transcription	Left Ventricle	heart
13	chr6:106994200-107019400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr6:106994200-107019600	Strong transcription	Primary T cells fromperipheralblood	blood
15	chr6:106994400-107000800	Weak transcription	Skeletal Muscle Male	skeletal muscle
16	chr6:106994600-106999600	Strong transcription	GM12878-XiMat	blood
17	chr6:106994600-107001400	Weak transcription	Spleen	Spleen
18	chr6:106994800-107000800	Weak transcription	Liver	Liver
19	chr6:106994800-107004200	Strong transcription	Primary T cells from cord blood	blood
20	chr6:106994800-107004600	Strong transcription	Rectal Mucosa Donor 29	rectum
21	chr6:106994800-107004600	Weak transcription	Hela-S3	cervix
22	chr6:106995000-106999200	Enhancers	Primary neutrophils fromperipheralblood	blood
23	chr6:106995000-106999200	Enhancers	Primary hematopoietic stem cells short term culture	blood
24	chr6:106995000-107019400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
25	chr6:106995200-107002000	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
26	chr6:106995200-107016200	Weak transcription	Duodenum Smooth Muscle	Duodenum
27	chr6:106995200-107018800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
28	chr6:106995800-106998000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
29	chr6:106995800-107001400	Weak transcription	Thymus	Thymus
30	chr6:106995800-107003800	Strong transcription	Primary T helper cells fromperipheralblood	blood
31	chr6:106995800-107004400	Strong transcription	Rectal Mucosa Donor 31	rectum
32	chr6:106996000-107000800	Strong transcription	Primary T helper cells PMA-I stimulated	--
33	chr6:106996000-107000800	Weak transcription	Adipose Nuclei	Adipose
34	chr6:106996000-107003400	Weak transcription	Colonic Mucosa	Colon
35	chr6:106996200-107001400	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr6:106996200-107002000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
37	chr6:106996200-107017200	Weak transcription	HSMM	muscle
38	chr6:106996200-107018400	Weak transcription	Fetal Stomach	stomach
39	chr6:106996200-107022400	Weak transcription	Ovary	ovary
40	chr6:106996200-107023000	Weak transcription	Stomach Mucosa	stomach
41	chr6:106996400-106999000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
42	chr6:106996400-107000000	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
43	chr6:106996400-107000800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr6:106996400-107001400	Weak transcription	Colon Smooth Muscle	Colon
45	chr6:106996400-107001600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
46	chr6:106996400-107005600	Weak transcription	Osteobl	bone
47	chr6:106996400-107009000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
48	chr6:106996400-107012200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
49	chr6:106996400-107027000	Strong transcription	Primary B cells from peripheral blood	blood
50	chr6:106996400-107030800	Weak transcription	HUES6 Cell Line	embryonic stem cell

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