Variant report

Variant	rs3798737
Chromosome Location	chr6:11203204-11203205
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:11197881..11200138-chr6:11201320..11203680,2	K562	blood:
2	chr6:11201732..11205267-chr6:11223600..11226865,3	MCF-7	breast:
3	chr6:11201485..11204415-chr6:11205595..11207344,2	MCF-7	breast:

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10484448	0.86[MEX][hapmap]
rs10807059	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10947017	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10947020	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10947021	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10947026	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10947036	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10947037	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12190771	0.94[CEU][hapmap];1.00[CHB][hapmap];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12190858	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12200095	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12200932	0.86[MEX][hapmap]
rs12205037	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12215094	0.89[CEU][hapmap];0.94[GIH][hapmap];0.96[TSI][hapmap];0.88[EUR][1000 genomes]
rs12215491	0.89[CEU][hapmap];1.00[CHB][hapmap];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17496632	1.00[JPT][hapmap]
rs2034	0.91[EUR][1000 genomes]
rs2327332	0.89[CEU][hapmap];1.00[CHB][hapmap];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs3102	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3734405	0.90[AMR][1000 genomes]
rs3756966	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs3778169	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs3778170	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3778171	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3798733	1.00[CEU][hapmap];1.00[GIH][hapmap];0.96[TSI][hapmap];0.91[EUR][1000 genomes]
rs3798734	1.00[CEU][hapmap];1.00[GIH][hapmap];0.96[TSI][hapmap];0.91[EUR][1000 genomes]
rs3798736	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs3798738	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3798743	0.89[CEU][hapmap];0.88[EUR][1000 genomes]
rs3823016	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6912916	0.95[CEU][hapmap];1.00[GIH][hapmap];0.96[TSI][hapmap];0.89[EUR][1000 genomes]
rs6937575	0.89[CEU][hapmap];0.94[GIH][hapmap];0.96[TSI][hapmap];0.88[EUR][1000 genomes]
rs726230	1.00[CEU][hapmap];1.00[GIH][hapmap];0.92[TSI][hapmap];0.88[EUR][1000 genomes]
rs729747	0.82[CEU][hapmap]
rs9295813	1.00[CEU][hapmap];1.00[GIH][hapmap];0.96[TSI][hapmap];0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021078	chr6:10819083-11558560	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv538135	chr6:10819083-11558560	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:11192800-11207000	Weak transcription	Stomach Smooth Muscle	stomach
2	chr6:11192800-11207200	Weak transcription	Liver	Liver
3	chr6:11195400-11207200	Weak transcription	Rectal Smooth Muscle	rectum
4	chr6:11195600-11207400	Weak transcription	Colon Smooth Muscle	Colon
5	chr6:11197000-11211000	Weak transcription	Fetal Muscle Trunk	muscle
6	chr6:11197000-11211200	Genic enhancers	HepG2	liver
7	chr6:11197400-11204000	Enhancers	NHDF-Ad	bronchial
8	chr6:11197800-11204600	Strong transcription	Primary B cells from cord blood	blood
9	chr6:11198200-11207000	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr6:11198400-11203800	Genic enhancers	Osteobl	bone
11	chr6:11198400-11206600	Genic enhancers	A549	lung
12	chr6:11198600-11203600	Genic enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr6:11198800-11205000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr6:11199200-11205400	Weak transcription	Right Ventricle	heart
15	chr6:11199400-11212600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
16	chr6:11199600-11204200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
17	chr6:11199600-11204200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
18	chr6:11200200-11203400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr6:11200200-11204200	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr6:11200200-11204200	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr6:11200200-11204600	Genic enhancers	Primary T helper cells PMA-I stimulated	--
22	chr6:11200400-11204600	Genic enhancers	HUVEC	blood vessel
23	chr6:11200400-11205600	Strong transcription	Primary B cells from peripheral blood	blood
24	chr6:11200800-11203600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
25	chr6:11200800-11204200	Genic enhancers	NHLF	lung
26	chr6:11201000-11203400	Genic enhancers	HSMMtube	muscle
27	chr6:11201000-11208600	Genic enhancers	Fetal Thymus	thymus
28	chr6:11201400-11203800	Genic enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr6:11201600-11203400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
30	chr6:11201600-11206000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr6:11201600-11206000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr6:11201600-11206200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr6:11201600-11206600	Weak transcription	Primary neutrophils fromperipheralblood	blood
34	chr6:11201600-11207800	Enhancers	Cortex derived primary cultured neurospheres	brain
35	chr6:11201600-11209600	Weak transcription	Fetal Brain Female	brain
36	chr6:11201600-11211000	Weak transcription	Gastric	stomach
37	chr6:11201800-11203400	Enhancers	Muscle Satellite Cultured Cells	--
38	chr6:11201800-11203400	Weak transcription	Rectal Mucosa Donor 31	rectum
39	chr6:11201800-11203600	Weak transcription	Placenta	Placenta
40	chr6:11201800-11203600	Weak transcription	Pancreas	Pancrea
41	chr6:11201800-11206600	Weak transcription	NHEK	skin
42	chr6:11201800-11213000	Weak transcription	Esophagus	oesophagus
43	chr6:11202000-11203400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr6:11202000-11204000	Enhancers	iPS-15b Cell Line	embryonic stem cell
45	chr6:11202000-11204000	Enhancers	Skeletal Muscle Male	skeletal muscle
46	chr6:11202000-11204200	Enhancers	Stomach Mucosa	stomach
47	chr6:11202000-11204400	Enhancers	H9 Cell Line	embryonic stem cell
48	chr6:11202000-11204400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
49	chr6:11202200-11203400	Enhancers	Fetal Intestine Large	intestine
50	chr6:11202200-11203600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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