Variant report

Variant	rs11188020
Chromosome Location	chr10:96314104-96314105
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	chr10:96304740..96307263-chr10:96312412..96314149,2	MCF-7	breast:
2	chr10:96305075..96307344-chr10:96312057..96315359,3	K562	blood:

Variant related genes	Relation type
ENSG00000119969	Chromatin interaction

Extended variants
information (count: 55 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10786168	1.00[JPT][hapmap]
rs10786169	0.80[JPT][hapmap]
rs10882460	1.00[JPT][hapmap]
rs10882463	1.00[JPT][hapmap]
rs10882474	1.00[JPT][hapmap]
rs10882475	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10882477	1.00[JPT][hapmap]
rs11187930	0.85[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs11187939	1.00[JPT][hapmap]
rs11187940	1.00[CEU][hapmap];0.91[JPT][hapmap];0.89[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs11187944	1.00[JPT][hapmap]
rs11187952	1.00[JPT][hapmap]
rs11187960	1.00[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11188009	1.00[JPT][hapmap]
rs11188012	0.80[JPT][hapmap]
rs11188036	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12221475	1.00[JPT][hapmap]
rs1326839	1.00[JPT][hapmap]
rs1334595	0.95[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1409655	0.84[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes]
rs1931757	0.95[CEU][hapmap];0.82[EUR][1000 genomes]
rs1977288	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1977291	0.95[CEU][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1980741	0.81[JPT][hapmap]
rs2031323	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2265366	0.81[EUR][1000 genomes]
rs2281791	1.00[JPT][hapmap]
rs2860840	0.84[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes]
rs3740358	1.00[JPT][hapmap]
rs3781262	1.00[JPT][hapmap]
rs4564258	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4600139	0.83[AMR][1000 genomes]
rs480032	0.95[CEU][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs4918402	1.00[JPT][hapmap]
rs517784	1.00[JPT][hapmap]
rs556055	1.00[JPT][hapmap]
rs6583941	0.83[EUR][1000 genomes]
rs6583942	0.95[CEU][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6583947	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs692872	1.00[JPT][hapmap]
rs701885	1.00[JPT][hapmap]
rs7075182	0.90[CEU][hapmap];0.93[CHB][hapmap];0.87[JPT][hapmap];0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7078478	0.95[CEU][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7083898	0.80[JPT][hapmap]
rs7087798	0.90[CEU][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7088008	0.82[EUR][1000 genomes]
rs7092129	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7096007	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7900007	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7913343	1.00[JPT][hapmap]
rs7922956	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9645542	0.87[AMR][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	nsv497859	chr10:96058024-97027747	Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	esv1819509	chr10:96064300-96361776	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv1053747	chr10:96211618-96366396	Strong transcription ZNF genes & repeats Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:91 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:96306200-96318600	Weak transcription	Aorta	Aorta
2	chr10:96306400-96314200	Weak transcription	Fetal Muscle Trunk	muscle
3	chr10:96306400-96314400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr10:96306400-96321200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr10:96306400-96325400	Weak transcription	Lung	lung
6	chr10:96306400-96330600	Weak transcription	Placenta	Placenta
7	chr10:96306400-96357200	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr10:96306400-96365600	Weak transcription	Esophagus	oesophagus
9	chr10:96306400-96370400	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr10:96306400-96370600	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr10:96306400-96371000	Weak transcription	Ovary	ovary
12	chr10:96306600-96349800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
13	chr10:96306600-96353800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
14	chr10:96306600-96379200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr10:96306800-96314200	Weak transcription	Duodenum Mucosa	Duodenum
16	chr10:96306800-96314200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr10:96306800-96314400	Weak transcription	Fetal Muscle Leg	muscle
18	chr10:96306800-96314600	Weak transcription	Thymus	Thymus
19	chr10:96306800-96315800	Weak transcription	Monocytes-CD14+_RO01746	blood
20	chr10:96306800-96317200	Weak transcription	Primary B cells from peripheral blood	blood
21	chr10:96306800-96317200	Weak transcription	Fetal Intestine Large	intestine
22	chr10:96306800-96318600	Weak transcription	HSMM	muscle
23	chr10:96306800-96323000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr10:96306800-96330400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
25	chr10:96306800-96348000	Weak transcription	Primary monocytes fromperipheralblood	blood
26	chr10:96306800-96348200	Weak transcription	Rectal Mucosa Donor 29	rectum
27	chr10:96306800-96348400	Weak transcription	Primary B cells from cord blood	blood
28	chr10:96306800-96349800	Weak transcription	Primary neutrophils fromperipheralblood	blood
29	chr10:96306800-96357200	Weak transcription	Primary T cells fromperipheralblood	blood
30	chr10:96306800-96373000	Weak transcription	Primary T cells from cord blood	blood
31	chr10:96307000-96314400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
32	chr10:96307000-96314800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr10:96307000-96358200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr10:96307000-96375000	Weak transcription	Osteobl	bone
35	chr10:96307200-96314800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr10:96307200-96315000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
37	chr10:96307200-96315800	Weak transcription	NH-A	brain
38	chr10:96307200-96318600	Weak transcription	Muscle Satellite Cultured Cells	--
39	chr10:96307200-96320000	Weak transcription	Primary T helper cells fromperipheralblood	blood
40	chr10:96307200-96371200	Weak transcription	Fetal Brain Male	brain
41	chr10:96307600-96314200	Weak transcription	Cortex derived primary cultured neurospheres	brain
42	chr10:96307600-96314600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
43	chr10:96307600-96314600	Weak transcription	Fetal Brain Female	brain
44	chr10:96307600-96314800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
45	chr10:96307600-96315600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
46	chr10:96307600-96316600	Weak transcription	Fetal Lung	lung
47	chr10:96307600-96318800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
48	chr10:96307600-96325400	Weak transcription	NHLF	lung
49	chr10:96307600-96327800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr10:96307600-96356000	Weak transcription	NHDF-Ad	bronchial

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