Variant report

Variant	rs12663498
Chromosome Location	chr6:151003840-151003841
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	chr6:150999388..151001415-chr6:151001884..151004556,2	K562	blood:
2	chr6:151002149..151004353-chr6:151006799..151008917,2	MCF-7	breast:

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs12661140	0.87[CEU][hapmap];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12664595	0.85[AMR][1000 genomes]
rs1494308	1.00[JPT][hapmap];0.81[AMR][1000 genomes]
rs1552886	0.81[AMR][1000 genomes]
rs1552889	0.80[AMR][1000 genomes]
rs17080057	0.87[CEU][hapmap];0.85[YRI][hapmap];0.85[AMR][1000 genomes]
rs17080062	0.87[CEU][hapmap];0.85[AMR][1000 genomes]
rs17080069	0.87[CEU][hapmap];0.96[GIH][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[YRI][hapmap];0.90[AMR][1000 genomes]
rs17080087	0.87[CEU][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17080089	0.87[CEU][hapmap];0.94[AMR][1000 genomes]
rs17080091	0.87[CEU][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17080093	0.87[CEU][hapmap];0.96[GIH][hapmap];1.00[MEX][hapmap];0.94[AMR][1000 genomes]
rs17080102	0.85[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs57139556	0.94[AMR][1000 genomes]
rs59155780	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs62434109	0.81[AMR][1000 genomes]
rs62434110	0.85[AMR][1000 genomes]
rs62434111	0.85[AMR][1000 genomes]
rs62434119	0.85[AMR][1000 genomes]
rs62434120	0.93[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs62434122	0.94[AMR][1000 genomes]
rs62434123	0.94[AMR][1000 genomes]
rs62434124	0.94[AMR][1000 genomes]
rs62434125	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62434129	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs654698	1.00[JPT][hapmap];0.94[MEX][hapmap]
rs6557082	1.00[JPT][hapmap]
rs6557083	1.00[JPT][hapmap]
rs6929935	1.00[JPT][hapmap]
rs7776166	0.82[MEX][hapmap]
rs9322273	1.00[JPT][hapmap];0.84[AMR][1000 genomes]
rs9322274	1.00[JPT][hapmap];0.84[AMR][1000 genomes]
rs9322277	0.82[AMR][1000 genomes]
rs9397343	0.83[AMR][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	nsv886772	chr6:150743364-151024280	Enhancers Active TSS Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1030326	chr6:150967665-151641372	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:150980600-151008800	Weak transcription	Gastric	stomach
2	chr6:150980800-151014800	Weak transcription	Pancreas	Pancrea
3	chr6:150989400-151007800	Weak transcription	Ovary	ovary
4	chr6:150990600-151008800	Weak transcription	Rectal Smooth Muscle	rectum
5	chr6:150990600-151016600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr6:150990800-151011800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr6:150995000-151008800	Weak transcription	Duodenum Smooth Muscle	Duodenum
8	chr6:150995400-151005400	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr6:150995400-151008800	Weak transcription	Small Intestine	intestine
10	chr6:150995600-151006000	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr6:150995600-151006200	Weak transcription	Duodenum Mucosa	Duodenum
12	chr6:150996600-151008000	Weak transcription	Fetal Intestine Large	intestine
13	chr6:150998200-151006000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr6:151000800-151010000	Enhancers	Primary B cells from peripheral blood	blood
15	chr6:151001000-151006600	Enhancers	Spleen	Spleen
16	chr6:151001600-151008200	Genic enhancers	Fetal Thymus	thymus
17	chr6:151002200-151005000	Enhancers	Breast Myoepithelial Primary Cells	Breast
18	chr6:151002400-151004200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr6:151002400-151007800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr6:151002600-151004200	Enhancers	Fetal Kidney	kidney
21	chr6:151002800-151004000	Enhancers	Right Ventricle	heart
22	chr6:151002800-151004000	Enhancers	HMEC	breast
23	chr6:151002800-151004200	Genic enhancers	Primary B cells from cord blood	blood
24	chr6:151002800-151004200	Enhancers	Fetal Muscle Leg	muscle
25	chr6:151002800-151004800	Enhancers	Fetal Muscle Trunk	muscle
26	chr6:151003000-151004000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr6:151003000-151004000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr6:151003000-151004600	Enhancers	Lung	lung
29	chr6:151003000-151004800	Enhancers	Esophagus	oesophagus
30	chr6:151003000-151006200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr6:151003000-151006400	Enhancers	Primary hematopoietic stem cells short term culture	blood
32	chr6:151003000-151006800	Strong transcription	Fetal Stomach	stomach
33	chr6:151003200-151004000	Enhancers	Adipose Nuclei	Adipose
34	chr6:151003200-151004000	Enhancers	Skeletal Muscle Male	skeletal muscle
35	chr6:151003200-151004600	Enhancers	Left Ventricle	heart
36	chr6:151003200-151004800	Enhancers	HUVEC	blood vessel
37	chr6:151003200-151006600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
38	chr6:151003400-151004000	Enhancers	Placenta	Placenta
39	chr6:151003400-151004200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
40	chr6:151003400-151007400	Genic enhancers	Thymus	Thymus
41	chr6:151003600-151004200	Enhancers	Sigmoid Colon	Sigmoid Colon
42	chr6:151003600-151006200	Enhancers	Primary T cells from cord blood	blood
43	chr6:151003600-151006600	Enhancers	Primary hematopoietic stem cells	blood
44	chr6:151003600-151007600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
45	chr6:151003600-151011400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr6:151003800-151004000	Enhancers	Brain Anterior Caudate	brain
47	chr6:151003800-151004000	Enhancers	Stomach Smooth Muscle	stomach
48	chr6:151003800-151005000	Enhancers	Right Atrium	heart
49	chr6:151003800-151007400	Weak transcription	NHEK	skin
50	chr6:151003800-151015000	Weak transcription	Brain Substantia Nigra	brain

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