Variant report

Variant	rs13202100
Chromosome Location	chr6:15460800-15460801
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:15244712..15246815-chr6:15459206..15462814,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000271888	Chromatin interaction
ENSG00000008083	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs11964846	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs11966626	0.85[EUR][1000 genomes]
rs13192234	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs13192892	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs13194650	0.89[EUR][1000 genomes]
rs13196869	0.88[EUR][1000 genomes]
rs13198780	0.88[EUR][1000 genomes]
rs13202955	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13204842	0.89[EUR][1000 genomes]
rs13208563	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs13209668	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs17455404	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1967664	0.82[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs2076056	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs2237138	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2299043	1.00[CEU][hapmap];0.86[JPT][hapmap];0.88[YRI][hapmap];0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs35868206	0.89[EUR][1000 genomes]
rs3819396	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs4712251	1.00[CEU][hapmap];0.89[YRI][hapmap];0.94[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs4715975	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs4715979	0.90[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs4715980	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs6899342	0.89[EUR][1000 genomes]
rs6899343	0.89[EUR][1000 genomes]
rs6917591	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs742099	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs742100	0.95[CEU][hapmap];0.89[EUR][1000 genomes]
rs7756331	0.88[EUR][1000 genomes]
rs7761778	0.88[EUR][1000 genomes]
rs7769291	0.95[CEU][hapmap];0.85[EUR][1000 genomes]
rs7774429	0.83[EUR][1000 genomes]
rs9383056	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9383062	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[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	nsv538140	chr6:15217899-15547127	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv538141	chr6:15234675-15509163	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:132 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15435800-15487600	Weak transcription	Colonic Mucosa	Colon
2	chr6:15440000-15468600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr6:15444600-15477400	Weak transcription	Hela-S3	cervix
4	chr6:15444800-15468800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr6:15445400-15474000	Weak transcription	NH-A	brain
6	chr6:15445600-15462600	Weak transcription	NHLF	lung
7	chr6:15446000-15462800	Weak transcription	HSMMtube	muscle
8	chr6:15446600-15479800	Weak transcription	Gastric	stomach
9	chr6:15448200-15479800	Weak transcription	Pancreas	Pancrea
10	chr6:15449800-15462800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr6:15452400-15475800	Weak transcription	Aorta	Aorta
12	chr6:15453000-15460800	Strong transcription	Monocytes-CD14+_RO01746	blood
13	chr6:15453000-15463000	Weak transcription	Duodenum Smooth Muscle	Duodenum
14	chr6:15453000-15468600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
15	chr6:15453000-15481000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
16	chr6:15453600-15468800	Weak transcription	Dnd41	blood
17	chr6:15453800-15462600	Weak transcription	Osteobl	bone
18	chr6:15453800-15462800	Weak transcription	Sigmoid Colon	Sigmoid Colon
19	chr6:15454000-15461600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
20	chr6:15454000-15462600	Weak transcription	Rectal Mucosa Donor 31	rectum
21	chr6:15454200-15462600	Weak transcription	HSMM	muscle
22	chr6:15454200-15468800	Weak transcription	Fetal Muscle Trunk	muscle
23	chr6:15454200-15468800	Weak transcription	Rectal Mucosa Donor 29	rectum
24	chr6:15455200-15468800	Weak transcription	Primary T cells fromperipheralblood	blood
25	chr6:15455400-15461400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr6:15455400-15462600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr6:15455400-15462800	Weak transcription	Fetal Muscle Leg	muscle
28	chr6:15455400-15463000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
29	chr6:15455400-15463200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
30	chr6:15455400-15463600	Weak transcription	Primary neutrophils fromperipheralblood	blood
31	chr6:15455400-15468000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
32	chr6:15455400-15468600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
33	chr6:15455400-15468800	Weak transcription	Fetal Intestine Large	intestine
34	chr6:15455400-15468800	Weak transcription	HepG2	liver
35	chr6:15455400-15469600	Weak transcription	Fetal Intestine Small	intestine
36	chr6:15455400-15475600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr6:15455400-15475600	Weak transcription	Esophagus	oesophagus
38	chr6:15455600-15463000	Weak transcription	Rectal Smooth Muscle	rectum
39	chr6:15455600-15468600	Weak transcription	K562	blood
40	chr6:15455800-15461000	Weak transcription	Primary T cells from cord blood	blood
41	chr6:15456400-15468600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
42	chr6:15456600-15461400	Weak transcription	NHEK	skin
43	chr6:15456600-15462000	Weak transcription	Primary T helper cells fromperipheralblood	blood
44	chr6:15456600-15467200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr6:15457000-15462200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr6:15457000-15468800	Weak transcription	HMEC	breast
47	chr6:15457000-15480800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
48	chr6:15457200-15462600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr6:15457200-15462800	Weak transcription	Muscle Satellite Cultured Cells	--
50	chr6:15457400-15463800	Enhancers	Brain Hippocampus Middle	brain

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