Variant report

Variant	rs17205225
Chromosome Location	chr15:62151262-62151263
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:62142649..62144721-chr15:62150330..62151848,2	MCF-7	breast:

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs1000598	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10851703	0.85[EUR][1000 genomes]
rs10851704	0.82[EUR][1000 genomes]
rs10851705	0.85[EUR][1000 genomes]
rs11071634	0.84[EUR][1000 genomes]
rs11631013	0.85[EUR][1000 genomes]
rs11631970	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11632774	0.82[EUR][1000 genomes]
rs11636504	0.85[EUR][1000 genomes]
rs11638344	0.84[EUR][1000 genomes]
rs12438431	0.84[EUR][1000 genomes]
rs12439330	0.84[EUR][1000 genomes]
rs12708468	0.86[EUR][1000 genomes]
rs12708469	0.84[EUR][1000 genomes]
rs12708470	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12901171	0.85[EUR][1000 genomes]
rs12901481	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12902092	0.80[EUR][1000 genomes]
rs12902409	0.84[EUR][1000 genomes]
rs12906423	0.85[AFR][1000 genomes]
rs12908081	0.90[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs12909692	0.81[EUR][1000 genomes]
rs12915825	0.83[AMR][1000 genomes]
rs12916268	0.83[AMR][1000 genomes]
rs13379947	0.81[AMR][1000 genomes]
rs1346036	0.85[EUR][1000 genomes]
rs17271151	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17271235	0.85[EUR][1000 genomes]
rs1981916	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs1981917	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs1991205	0.85[EUR][1000 genomes]
rs2059471	0.83[EUR][1000 genomes]
rs2098850	0.85[EUR][1000 genomes]
rs2241491	0.85[EUR][1000 genomes]
rs2414755	0.83[AMR][1000 genomes]
rs28413840	0.85[EUR][1000 genomes]
rs3743297	0.92[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs3809517	0.84[EUR][1000 genomes]
rs3886246	0.85[EUR][1000 genomes]
rs4283171	0.83[AMR][1000 genomes]
rs4541010	0.81[EUR][1000 genomes]
rs4774425	0.85[EUR][1000 genomes]
rs4775442	0.85[EUR][1000 genomes]
rs4775447	0.84[EUR][1000 genomes]
rs4775451	0.85[EUR][1000 genomes]
rs6494299	0.80[EUR][1000 genomes]
rs7163441	0.84[EUR][1000 genomes]
rs7402374	0.84[EUR][1000 genomes]
rs8025282	0.85[EUR][1000 genomes]
rs8032681	0.89[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs8034185	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9920945	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv904284	chr15:62123600-62243197	Weak transcription Enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
2	nsv521334	chr15:62129809-62340126	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv527451	chr15:62129809-62340126	Weak transcription Strong transcription Genic enhancers Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
4	nsv904285	chr15:62146598-62246864	Weak transcription Strong transcription Active TSS ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS	TF binding region Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
5	nsv904286	chr15:62146598-62313373	Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Enhancers Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
6	nsv904287	chr15:62146598-62338797	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
7	nsv904288	chr15:62146598-62356386	Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:101 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:62132400-62159000	Weak transcription	HSMM	muscle
2	chr15:62132400-62171200	Weak transcription	HMEC	breast
3	chr15:62135000-62161600	Weak transcription	Muscle Satellite Cultured Cells	--
4	chr15:62138800-62184200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr15:62139200-62182200	Weak transcription	Brain Substantia Nigra	brain
6	chr15:62139400-62154800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr15:62139800-62185200	Weak transcription	NHLF	lung
8	chr15:62140000-62184800	Weak transcription	Right Ventricle	heart
9	chr15:62140200-62180000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr15:62141200-62165400	Weak transcription	Brain Hippocampus Middle	brain
11	chr15:62141400-62160600	Weak transcription	Placenta	Placenta
12	chr15:62141400-62161400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr15:62141600-62161400	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr15:62141600-62165000	Weak transcription	Thymus	Thymus
15	chr15:62142000-62165000	Weak transcription	Gastric	stomach
16	chr15:62142000-62209400	Weak transcription	Colonic Mucosa	Colon
17	chr15:62142200-62161600	Weak transcription	Fetal Stomach	stomach
18	chr15:62142200-62162800	Weak transcription	Hela-S3	cervix
19	chr15:62142400-62160800	Weak transcription	Fetal Muscle Trunk	muscle
20	chr15:62142400-62163800	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr15:62142400-62253000	Weak transcription	Spleen	Spleen
22	chr15:62142600-62209200	Weak transcription	K562	blood
23	chr15:62143000-62164000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr15:62143200-62151800	Strong transcription	Primary monocytes fromperipheralblood	blood
25	chr15:62143200-62152400	Strong transcription	Monocytes-CD14+_RO01746	blood
26	chr15:62143800-62182200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr15:62143800-62235600	Weak transcription	Fetal Brain Male	brain
28	chr15:62144000-62159800	Weak transcription	Osteobl	bone
29	chr15:62144000-62194600	Weak transcription	Fetal Lung	lung
30	chr15:62144200-62160600	Weak transcription	Fetal Thymus	thymus
31	chr15:62144400-62153200	Weak transcription	Fetal Intestine Small	intestine
32	chr15:62144400-62155200	Weak transcription	Dnd41	blood
33	chr15:62144600-62154800	Weak transcription	HUES64 Cell Line	embryonic stem cell
34	chr15:62144600-62155200	Weak transcription	A549	lung
35	chr15:62144800-62151400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr15:62144800-62161400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
37	chr15:62144800-62162400	Weak transcription	Rectal Smooth Muscle	rectum
38	chr15:62144800-62184000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr15:62145200-62160600	Weak transcription	Skeletal Muscle Male	skeletal muscle
40	chr15:62145200-62163400	Weak transcription	Brain Cingulate Gyrus	brain
41	chr15:62145200-62182000	Weak transcription	NHEK	skin
42	chr15:62145400-62171600	Weak transcription	Stomach Mucosa	stomach
43	chr15:62145800-62182000	Weak transcription	Small Intestine	intestine
44	chr15:62146800-62230000	Weak transcription	Pancreas	Pancrea
45	chr15:62147000-62161800	Weak transcription	NHDF-Ad	bronchial
46	chr15:62147000-62162800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr15:62147000-62181800	Weak transcription	Brain Anterior Caudate	brain
48	chr15:62147000-62184000	Weak transcription	Lung	lung
49	chr15:62147200-62155200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
50	chr15:62147200-62158400	Weak transcription	Rectal Mucosa Donor 31	rectum

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