Variant report

Variant	rs17565194
Chromosome Location	chr6:107063761-107063762
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:107062851..107064672-chr6:107076464..107078544,2	MCF-7	breast:
2	chr6:107061851..107064712-chr6:107064775..107067143,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000130348	Chromatin interaction
ENSG00000130347	Chromatin interaction

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs1613722	0.89[ASN][1000 genomes]
rs1616375	1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs1676008	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1676010	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1676024	0.82[ASN][1000 genomes]
rs1676025	0.82[ASN][1000 genomes]
rs1676028	0.89[ASN][1000 genomes]
rs17067603	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17506892	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1770718	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs1770719	0.82[ASN][1000 genomes]
rs1770721	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs1770722	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs1770723	0.89[ASN][1000 genomes]
rs1770733	1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2066201	0.82[ASN][1000 genomes]
rs2247335	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs2615209	0.89[ASN][1000 genomes]
rs36016898	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3747789	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3804344	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4946762	0.82[EUR][1000 genomes]
rs57273146	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs58328278	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs60992370	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs66665063	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs66991204	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs67667413	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6902745	1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs6903818	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6911321	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6925169	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72945076	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72946518	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72946522	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72946537	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs73509819	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7750387	0.83[EUR][1000 genomes]
rs7771502	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs783395	0.82[YRI][hapmap]
rs9386565	1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]

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	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

No data

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:106996400-107074000	Weak transcription	Fetal Kidney	kidney
2	chr6:107010200-107064600	Weak transcription	A549	lung
3	chr6:107018400-107066400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
4	chr6:107018400-107076400	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr6:107018800-107076200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
6	chr6:107019000-107076200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
7	chr6:107019800-107076400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
8	chr6:107022000-107076400	Weak transcription	Primary neutrophils fromperipheralblood	blood
9	chr6:107023400-107068800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr6:107023400-107076600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr6:107030800-107076800	Weak transcription	Small Intestine	intestine
12	chr6:107031200-107077000	Weak transcription	Spleen	Spleen
13	chr6:107031400-107065200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr6:107031400-107076200	Weak transcription	Fetal Muscle Trunk	muscle
15	chr6:107031400-107076600	Weak transcription	Brain Angular Gyrus	brain
16	chr6:107031800-107076600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
17	chr6:107033000-107076600	Weak transcription	Aorta	Aorta
18	chr6:107035400-107076600	Weak transcription	Right Ventricle	heart
19	chr6:107035800-107070400	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr6:107035800-107070400	Weak transcription	Fetal Lung	lung
21	chr6:107039200-107076400	Weak transcription	Brain Germinal Matrix	brain
22	chr6:107039200-107076600	Weak transcription	Fetal Muscle Leg	muscle
23	chr6:107039600-107076600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr6:107039600-107076600	Weak transcription	Fetal Stomach	stomach
25	chr6:107039800-107076200	Weak transcription	Primary T helper cells PMA-I stimulated	--
26	chr6:107039800-107076400	Weak transcription	Stomach Smooth Muscle	stomach
27	chr6:107040000-107065200	Weak transcription	HepG2	liver
28	chr6:107040000-107066000	Weak transcription	Brain Anterior Caudate	brain
29	chr6:107040000-107068400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr6:107040000-107076600	Weak transcription	Brain Cingulate Gyrus	brain
31	chr6:107040000-107076600	Weak transcription	Fetal Intestine Large	intestine
32	chr6:107040200-107064000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
33	chr6:107040200-107064600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr6:107040200-107064800	Weak transcription	Sigmoid Colon	Sigmoid Colon
35	chr6:107040200-107065000	Weak transcription	K562	blood
36	chr6:107040200-107068400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr6:107040200-107070600	Weak transcription	Dnd41	blood
38	chr6:107040200-107076200	Weak transcription	Rectal Mucosa Donor 29	rectum
39	chr6:107040200-107076400	Weak transcription	Brain Substantia Nigra	brain
40	chr6:107040200-107076600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
41	chr6:107040200-107076600	Weak transcription	Ovary	ovary
42	chr6:107040400-107066400	Weak transcription	Liver	Liver
43	chr6:107040400-107066600	Weak transcription	HSMM	muscle
44	chr6:107040400-107070200	Weak transcription	Rectal Mucosa Donor 31	rectum
45	chr6:107045600-107076600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
46	chr6:107048200-107070200	Weak transcription	Lung	lung
47	chr6:107048600-107065200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
48	chr6:107048600-107066400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
49	chr6:107048600-107073800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr6:107048600-107076600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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