Variant report

Variant	rs10858001
Chromosome Location	chr1:114081002-114081003
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:113930978..113933860-chr1:114080103..114082897,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000081026	Chromatin interaction

Extended variants
information (count: 95 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:93)

rs_ID	r²[population]
rs10745339	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs10858000	0.95[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs10858002	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10858005	0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs10858007	0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs10858008	0.95[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs10858011	0.95[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs11102648	0.98[ASN][1000 genomes]
rs11102649	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs11102651	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11102652	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs11102653	0.97[ASN][1000 genomes]
rs11102654	0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs11102657	0.86[ASN][1000 genomes]
rs11102658	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11102661	0.89[ASN][1000 genomes]
rs11102669	0.87[ASN][1000 genomes]
rs1113523	0.90[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs1146182	0.90[CHB][hapmap];0.81[JPT][hapmap];0.89[ASN][1000 genomes]
rs1146187	0.90[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs12021513	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12035317	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs12037873	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs12039224	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12043639	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12074958	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs12077419	0.95[ASN][1000 genomes]
rs1217192	0.95[CHB][hapmap];0.81[JPT][hapmap];0.88[ASN][1000 genomes]
rs1217193	0.90[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs1217199	0.95[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs1217200	0.90[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs1217201	0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs1217203	0.92[ASN][1000 genomes]
rs1217204	0.91[ASN][1000 genomes]
rs1217208	0.92[ASN][1000 genomes]
rs1217210	0.89[ASN][1000 genomes]
rs1217211	0.90[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs1217214	0.90[ASN][1000 genomes]
rs1217215	0.92[ASN][1000 genomes]
rs1217221	0.84[ASN][1000 genomes]
rs1217223	0.92[ASN][1000 genomes]
rs1217226	0.95[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs1217227	0.95[CHB][hapmap];0.90[JPT][hapmap];0.92[ASN][1000 genomes]
rs1217228	0.95[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs1217230	0.91[ASN][1000 genomes]
rs1217232	0.92[ASN][1000 genomes]
rs1217233	0.92[ASN][1000 genomes]
rs1217234	0.95[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs1217235	0.95[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs1217236	0.85[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs1217237	0.92[ASN][1000 genomes]
rs1228280	0.89[ASN][1000 genomes]
rs1230655	0.87[ASN][1000 genomes]
rs1230656	0.81[ASN][1000 genomes]
rs1230658	0.90[CHB][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs1230659	0.90[CHB][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs1230661	0.90[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs1230663	0.82[ASN][1000 genomes]
rs1230671	0.89[ASN][1000 genomes]
rs1235687	0.93[ASN][1000 genomes]
rs1235688	0.92[ASN][1000 genomes]
rs1237289	0.95[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs12565589	0.95[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs1343125	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs1343128	0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs1418957	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1418958	0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs17013326	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs17031716	0.90[CHB][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs1743605	0.90[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs1777234	0.88[ASN][1000 genomes]
rs1777237	0.90[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs1777238	0.87[ASN][1000 genomes]
rs1777241	0.95[CHB][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs2153977	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2636002	0.84[ASN][1000 genomes]
rs2798135	0.88[ASN][1000 genomes]
rs2798138	0.89[ASN][1000 genomes]
rs2884703	0.95[ASN][1000 genomes]
rs2884704	0.88[ASN][1000 genomes]
rs4259646	0.86[YRI][hapmap]
rs4274063	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4456089	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs4838997	0.87[ASN][1000 genomes]
rs4839335	0.83[ASN][1000 genomes]
rs6537790	0.86[YRI][hapmap]
rs6537792	0.90[CHB][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs6689879	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6704188	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72687973	0.88[ASN][1000 genomes]
rs72687980	0.95[ASN][1000 genomes]
rs7536360	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs7554019	0.86[YRI][hapmap]

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	nsv437013	chr1:114065955-114129092	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv946153	chr1:114080236-114088844	Active TSS Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:114072200-114095800	Weak transcription	Aorta	Aorta
2	chr1:114077200-114081800	Weak transcription	Colon Smooth Muscle	Colon
3	chr1:114077200-114082600	Weak transcription	Fetal Intestine Large	intestine
4	chr1:114077200-114082800	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr1:114077600-114083000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr1:114077800-114082400	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr1:114077800-114082600	Weak transcription	Rectal Mucosa Donor 31	rectum
8	chr1:114077800-114083000	Weak transcription	Fetal Muscle Leg	muscle
9	chr1:114077800-114084400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr1:114077800-114084400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr1:114077800-114084400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr1:114078000-114090000	Weak transcription	HUES64 Cell Line	embryonic stem cell
13	chr1:114078600-114084200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr1:114078600-114084600	Weak transcription	HSMMtube	muscle
15	chr1:114079200-114083200	Weak transcription	Osteobl	bone
16	chr1:114079400-114084400	Weak transcription	NH-A	brain
17	chr1:114080000-114081200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr1:114080000-114084400	Weak transcription	NHLF	lung
19	chr1:114080200-114082800	Weak transcription	Pancreas	Pancrea
20	chr1:114080200-114083000	Weak transcription	Ovary	ovary
21	chr1:114080400-114081600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr1:114080600-114088600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr1:114080800-114081400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr1:114080800-114081600	Enhancers	Muscle Satellite Cultured Cells	--
25	chr1:114080800-114081600	Enhancers	HMEC	breast
26	chr1:114080800-114081600	Enhancers	NHEK	skin
27	chr1:114081000-114081400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr1:114081000-114082800	Weak transcription	NHDF-Ad	bronchial

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