Variant report

Variant	rs9343869
Chromosome Location	chr6:79784421-79784422
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:76311195..76314195-chr6:79782356..79784947,3	K562	blood:
2	chr6:79782683..79789958-chr6:79939846..79945776,22	MCF-7	breast:
3	chr6:79781654..79785263-chr6:79942636..79944912,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000112701	Chromatin interaction
ENSG00000270362	Chromatin interaction
ENSG00000118418	Chromatin interaction

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10806154	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11758432	0.96[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11964204	0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs12192086	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1338023	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2275290	0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs2275291	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2321897	0.81[EUR][1000 genomes]
rs36017295	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3805746	0.94[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs3818839	0.96[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3929867	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62411261	0.87[ASN][1000 genomes]
rs6908105	0.92[CHB][hapmap];0.93[JPT][hapmap];0.81[ASN][1000 genomes]
rs6940949	1.00[CHB][hapmap];0.94[JPT][hapmap];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7740307	0.94[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs7750836	0.85[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7756648	0.88[ASN][1000 genomes]
rs7776138	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9294130	0.94[CHB][hapmap];0.88[JPT][hapmap];0.82[ASN][1000 genomes]
rs9341760	0.88[ASN][1000 genomes]
rs9343849	0.90[ASN][1000 genomes]
rs9343853	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9343859	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9343865	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9343867	0.90[CEU][hapmap];0.86[CHB][hapmap];0.93[JPT][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9343875	0.88[ASN][1000 genomes]
rs9343876	0.88[ASN][1000 genomes]
rs9350797	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.92[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9350801	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9352672	0.83[ASN][1000 genomes]
rs9352685	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9352688	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9352693	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9352696	0.88[ASN][1000 genomes]
rs9352701	0.86[ASN][1000 genomes]
rs9359361	0.95[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9359366	0.87[ASN][1000 genomes]
rs9361473	0.94[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs9361478	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9361481	0.84[CHB][hapmap];0.88[JPT][hapmap];0.91[ASN][1000 genomes]
rs9361483	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9361497	0.86[ASN][1000 genomes]
rs9443623	0.88[AFR][1000 genomes];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9443642	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9448594	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9448600	0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs9448601	0.86[ASN][1000 genomes]
rs9448602	0.84[ASN][1000 genomes]
rs9448616	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9448647	0.86[ASN][1000 genomes]
rs956550	1.00[CHB][hapmap];0.93[JPT][hapmap];0.86[ASN][1000 genomes]
rs9688928	0.89[ASN][1000 genomes]

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	nsv830705	chr6:79659297-79829530	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
2	nsv518477	chr6:79700159-79850427	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
3	nsv981330	chr6:79781902-79785177	Strong transcription Active TSS Weak transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:79704600-79786600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr6:79707400-79786000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr6:79707400-79786600	Weak transcription	Esophagus	oesophagus
4	chr6:79730000-79786600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr6:79742000-79785400	Weak transcription	HSMMtube	muscle
6	chr6:79755000-79785400	Weak transcription	Colonic Mucosa	Colon
7	chr6:79760600-79785400	Weak transcription	Right Ventricle	heart
8	chr6:79760600-79786800	Weak transcription	Spleen	Spleen
9	chr6:79768600-79786400	Weak transcription	Placenta Amnion	Placenta Amnion
10	chr6:79769800-79785400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr6:79770400-79784600	Weak transcription	NHEK	skin
12	chr6:79770400-79784800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr6:79770400-79784800	Weak transcription	HMEC	breast
14	chr6:79770400-79785000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr6:79770400-79785400	Weak transcription	Thymus	Thymus
16	chr6:79770400-79786600	Weak transcription	Lung	lung
17	chr6:79770600-79785000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr6:79770600-79785000	Weak transcription	Hela-S3	cervix
19	chr6:79770600-79785400	Weak transcription	Liver	Liver
20	chr6:79770600-79785800	Weak transcription	Fetal Muscle Trunk	muscle
21	chr6:79770600-79786000	Weak transcription	H9 Cell Line	embryonic stem cell
22	chr6:79772000-79784800	Weak transcription	H1 Cell Line	embryonic stem cell
23	chr6:79773400-79785400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
24	chr6:79775000-79785400	Weak transcription	Fetal Stomach	stomach
25	chr6:79775200-79785800	Weak transcription	Fetal Muscle Leg	muscle
26	chr6:79775200-79786600	Weak transcription	Pancreas	Pancrea
27	chr6:79775400-79785000	Weak transcription	Adipose Nuclei	Adipose
28	chr6:79775400-79786600	Weak transcription	Gastric	stomach
29	chr6:79777000-79786000	Weak transcription	Left Ventricle	heart
30	chr6:79777800-79784800	Weak transcription	NH-A	brain
31	chr6:79777800-79785600	Weak transcription	Fetal Thymus	thymus
32	chr6:79778200-79785000	Weak transcription	Fetal Intestine Small	intestine
33	chr6:79778200-79785800	Weak transcription	Ovary	ovary
34	chr6:79778400-79785400	Weak transcription	Psoas Muscle	Psoas
35	chr6:79779600-79784800	Enhancers	Primary T helper cells PMA-I stimulated	--
36	chr6:79779600-79785600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
37	chr6:79780200-79785800	Enhancers	Colon Smooth Muscle	Colon
38	chr6:79780400-79785000	Weak transcription	Skeletal Muscle Male	skeletal muscle
39	chr6:79780400-79785000	Weak transcription	Stomach Smooth Muscle	stomach
40	chr6:79780600-79785600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
41	chr6:79781000-79784600	Weak transcription	Rectal Mucosa Donor 29	rectum
42	chr6:79781000-79784800	Weak transcription	Brain Germinal Matrix	brain
43	chr6:79781000-79784800	Weak transcription	Duodenum Mucosa	Duodenum
44	chr6:79781000-79784800	Weak transcription	Fetal Kidney	kidney
45	chr6:79781000-79784800	Weak transcription	HSMM	muscle
46	chr6:79781000-79785000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
47	chr6:79781000-79785000	Weak transcription	Muscle Satellite Cultured Cells	--
48	chr6:79781000-79785000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
49	chr6:79781000-79785000	Weak transcription	Rectal Mucosa Donor 31	rectum
50	chr6:79781000-79785000	Weak transcription	Stomach Mucosa	stomach

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