Variant report

Variant	rs35090908
Chromosome Location	chr6:106974668-106974669
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	chr6:106972979..106975776-chr6:106983451..106985409,2	MCF-7	breast:

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs1159148	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13193036	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13194986	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13202166	0.81[AMR][1000 genomes]
rs13202942	0.85[ASN][1000 genomes]
rs13207381	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13218830	0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs13218960	0.85[ASN][1000 genomes]
rs13219061	0.85[ASN][1000 genomes]
rs13220097	0.96[ASN][1000 genomes]
rs17495644	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17495720	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17560979	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1841688	0.85[ASN][1000 genomes]
rs1841689	0.85[ASN][1000 genomes]
rs1870866	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2306099	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2353050	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34550542	0.85[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs34590393	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35452551	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35546863	0.85[ASN][1000 genomes]
rs35790766	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35843244	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs55858175	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56361614	0.84[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs72941340	0.85[ASN][1000 genomes]
rs7740989	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7752730	0.96[ASN][1000 genomes]
rs9320173	0.85[ASN][1000 genomes]
rs9320174	0.85[ASN][1000 genomes]
rs9320175	0.85[ASN][1000 genomes]
rs9480681	0.85[ASN][1000 genomes]
rs9480682	0.85[ASN][1000 genomes]
rs9486381	0.85[ASN][1000 genomes]
rs9486382	0.85[ASN][1000 genomes]
rs9486383	0.85[ASN][1000 genomes]
rs9486384	0.85[ASN][1000 genomes]
rs9486385	0.85[ASN][1000 genomes]
rs9486386	0.85[ASN][1000 genomes]
rs9486387	0.85[ASN][1000 genomes]
rs9486388	0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 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
4	nsv1025510	chr6:106791080-106982400	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
5	nsv538404	chr6:106791080-106982400	Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:74 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:106961000-106981000	Weak transcription	Lung	lung
2	chr6:106961000-107001400	Weak transcription	Gastric	stomach
3	chr6:106964800-106991000	Weak transcription	Spleen	Spleen
4	chr6:106964800-107029800	Weak transcription	Small Intestine	intestine
5	chr6:106967800-106975600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr6:106968200-106976400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr6:106968200-106980800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr6:106968800-106975800	Weak transcription	HSMM	muscle
9	chr6:106970000-106981000	Weak transcription	Esophagus	oesophagus
10	chr6:106970600-107022400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr6:106970800-106975800	Weak transcription	HepG2	liver
12	chr6:106971000-106976200	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr6:106972800-106976800	Enhancers	NH-A	brain
14	chr6:106973200-106981000	Weak transcription	Colonic Mucosa	Colon
15	chr6:106973200-106981000	Weak transcription	Fetal Intestine Small	intestine
16	chr6:106973400-106974800	Weak transcription	HMEC	breast
17	chr6:106973400-106975000	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr6:106973400-106975000	Genic enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr6:106973400-106975200	Weak transcription	Osteobl	bone
20	chr6:106973400-106975400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr6:106973400-106975400	Genic enhancers	Primary B cells from peripheral blood	blood
22	chr6:106973400-106976000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
23	chr6:106973400-106976400	Weak transcription	Fetal Thymus	thymus
24	chr6:106973400-106977400	Weak transcription	Pancreatic Islets	Pancreatic Islet
25	chr6:106973400-106979800	Enhancers	Hela-S3	cervix
26	chr6:106973400-106981000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
27	chr6:106973400-106985600	Weak transcription	Stomach Mucosa	stomach
28	chr6:106973600-106974800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
29	chr6:106973600-106975000	Weak transcription	Rectal Mucosa Donor 31	rectum
30	chr6:106973600-106975200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr6:106973600-106975200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
32	chr6:106973600-106975200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr6:106973600-106975200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr6:106973600-106975200	Weak transcription	Adipose Nuclei	Adipose
35	chr6:106973600-106975200	Weak transcription	NHDF-Ad	bronchial
36	chr6:106973600-106975200	Enhancers	NHEK	skin
37	chr6:106973600-106975800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
38	chr6:106973600-106976000	Genic enhancers	Primary T killer memory cells from peripheral blood	blood
39	chr6:106973600-106976000	Weak transcription	Duodenum Mucosa	Duodenum
40	chr6:106973600-106979400	Enhancers	HUVEC	blood vessel
41	chr6:106973600-106980000	Weak transcription	Rectal Smooth Muscle	rectum
42	chr6:106973600-106980800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
43	chr6:106973600-106985800	Weak transcription	Thymus	Thymus
44	chr6:106973600-106986000	Genic enhancers	Primary T helper memory cells from peripheral blood 1	blood
45	chr6:106973600-106992800	Weak transcription	Duodenum Smooth Muscle	Duodenum
46	chr6:106973800-106975000	Weak transcription	Muscle Satellite Cultured Cells	--
47	chr6:106973800-106975800	Weak transcription	Liver	Liver
48	chr6:106973800-106979400	Genic enhancers	Primary T helper 17 cells PMA-I stimulated	--
49	chr6:106973800-106980200	Strong transcription	Primary neutrophils fromperipheralblood	blood
50	chr6:106974000-106974800	Genic enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood

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