Variant report

Variant	rs10899118
Chromosome Location	chr11:75481664-75481665
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	GATA3	chr11:75481650-75482195	MCF-7	breast:	n/a	chr11:75481828-75481835 chr11:75481990-75481999 chr11:75481821-75481837
2	GATA3	chr11:75481577-75482459	MCF-7	breast:	n/a	chr11:75481828-75481835 chr11:75481990-75481999 chr11:75481821-75481837

No.	Distal block	Cell Line	Cell type
1	chr11:75478711..75481665-chr11:75512333..75514833,3	MCF-7	breast:
2	chr11:75481614..75484902-chr11:75487270..75489569,3	K562	blood:
3	chr11:75479943..75481752-chr11:75484660..75487387,2	MCF-7	breast:
4	chr11:75479619..75482168-chr11:75525507..75528188,2	MCF-7	breast:
5	chr11:75477223..75481853-chr11:75500623..75503657,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000247867	TF binding region
ENSG00000255507	Chromatin interaction
ENSG00000254814	Chromatin interaction
ENSG00000062282	Chromatin interaction
ENSG00000254826	Chromatin interaction
ENSG00000198382	Chromatin interaction

Extended variants
information (count: 116 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:113)

rs_ID	r²[population]
rs10160802	0.90[CEU][hapmap];0.89[CHB][hapmap];0.85[MEX][hapmap];0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1017713	1.00[CEU][hapmap];0.90[TSI][hapmap];0.87[EUR][1000 genomes]
rs10219339	1.00[CEU][hapmap];0.90[TSI][hapmap];0.95[EUR][1000 genomes]
rs10793124	0.81[CEU][hapmap]
rs10793125	0.81[CEU][hapmap]
rs10793126	0.85[AMR][1000 genomes]
rs10793132	1.00[CEU][hapmap];0.96[YRI][hapmap];0.85[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs10793133	0.87[EUR][1000 genomes]
rs10793135	1.00[CEU][hapmap];0.81[TSI][hapmap];0.84[EUR][1000 genomes]
rs10899110	0.81[CEU][hapmap]
rs10899112	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs10899114	0.90[CEU][hapmap];0.89[CHB][hapmap];0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs10899115	0.85[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs10899116	0.90[CEU][hapmap];0.81[TSI][hapmap]
rs10899119	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs10899120	0.95[EUR][1000 genomes]
rs10899121	1.00[CEU][hapmap];1.00[GIH][hapmap];0.90[TSI][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10899122	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10899123	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10899124	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs10899127	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10899128	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10899129	1.00[CEU][hapmap];0.81[TSI][hapmap];0.87[EUR][1000 genomes]
rs10899131	0.87[EUR][1000 genomes]
rs10899132	0.87[EUR][1000 genomes]
rs10899134	1.00[CEU][hapmap];0.81[TSI][hapmap];0.87[EUR][1000 genomes]
rs10899135	0.87[EUR][1000 genomes]
rs10899136	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs10899137	0.87[EUR][1000 genomes]
rs10899138	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs10899139	0.82[EUR][1000 genomes]
rs10899140	0.84[EUR][1000 genomes]
rs10899141	1.00[CEU][hapmap];0.81[TSI][hapmap];0.84[EUR][1000 genomes]
rs10899142	0.85[EUR][1000 genomes]
rs10899144	0.82[EUR][1000 genomes]
rs10899145	1.00[CEU][hapmap];0.87[LWK][hapmap];0.85[MEX][hapmap];0.81[TSI][hapmap];0.83[YRI][hapmap];0.85[EUR][1000 genomes]
rs11236514	0.81[CEU][hapmap]
rs11236515	0.81[CEU][hapmap]
rs11236516	0.81[CEU][hapmap]
rs11236518	0.81[CEU][hapmap]
rs11236525	0.85[ASN][1000 genomes]
rs11236526	0.85[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs11236527	0.85[AMR][1000 genomes]
rs11236530	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs11236531	1.00[CEU][hapmap];1.00[GIH][hapmap];0.90[TSI][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11236533	1.00[CEU][hapmap];0.81[TSI][hapmap];0.87[EUR][1000 genomes]
rs11236534	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs11236537	0.85[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs11236538	0.83[EUR][1000 genomes]
rs11236539	0.87[EUR][1000 genomes]
rs11236540	0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.85[LWK][hapmap];0.85[MEX][hapmap];0.81[TSI][hapmap];0.93[YRI][hapmap];0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11236542	0.85[EUR][1000 genomes]
rs11236543	0.85[EUR][1000 genomes]
rs11236545	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs11236546	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs11236549	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs11236551	0.84[EUR][1000 genomes]
rs11236552	1.00[CEU][hapmap];0.81[TSI][hapmap];0.84[EUR][1000 genomes]
rs11236553	1.00[CEU][hapmap];0.81[TSI][hapmap];0.84[EUR][1000 genomes]
rs11236554	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs11236555	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs11236564	0.80[EUR][1000 genomes]
rs11501918	0.87[EUR][1000 genomes]
rs11822903	0.88[CEU][hapmap];0.95[YRI][hapmap];0.85[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs11823869	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs1219549	0.89[ASN][1000 genomes]
rs1219550	0.89[ASN][1000 genomes]
rs12222542	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12222995	1.00[CEU][hapmap];0.90[TSI][hapmap];0.88[EUR][1000 genomes]
rs12223234	0.80[EUR][1000 genomes]
rs12224062	0.82[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs12278224	1.00[CEU][hapmap];1.00[GIH][hapmap];0.87[LWK][hapmap];0.85[MEX][hapmap];0.81[TSI][hapmap];0.93[YRI][hapmap];0.81[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs12278257	1.00[CEU][hapmap];0.81[TSI][hapmap];0.84[EUR][1000 genomes]
rs12280456	0.90[CEU][hapmap]
rs12280464	0.90[CEU][hapmap]
rs12285853	0.87[EUR][1000 genomes]
rs1458836	1.00[CEU][hapmap];0.81[TSI][hapmap];0.87[EUR][1000 genomes]
rs17134394	1.00[CEU][hapmap];0.85[MEX][hapmap];0.81[TSI][hapmap];0.85[EUR][1000 genomes]
rs1806895	0.92[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs2004638	0.90[CEU][hapmap]
rs2008476	0.90[CEU][hapmap];0.85[MEX][hapmap];0.81[AMR][1000 genomes]
rs2168947	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];0.93[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3060	0.83[ASW][hapmap];1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[GIH][hapmap];0.94[LWK][hapmap];0.93[MEX][hapmap];0.90[TSI][hapmap];0.96[YRI][hapmap];0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3740849	1.00[CEU][hapmap];1.00[GIH][hapmap];0.87[LWK][hapmap];0.85[MEX][hapmap];0.81[TSI][hapmap];0.96[YRI][hapmap];0.85[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs3740850	1.00[CEU][hapmap];0.81[TSI][hapmap];0.87[EUR][1000 genomes]
rs498936	0.89[ASN][1000 genomes]
rs57188913	0.92[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs58340821	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs59913369	0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs60677263	0.87[EUR][1000 genomes]
rs6592615	1.00[CEU][hapmap];1.00[GIH][hapmap];0.85[MEX][hapmap];0.81[TSI][hapmap];0.82[EUR][1000 genomes]
rs66784596	0.85[EUR][1000 genomes]
rs67233017	0.84[EUR][1000 genomes]
rs67268976	0.85[EUR][1000 genomes]
rs695110	0.83[ASN][1000 genomes]
rs7101806	1.00[CEU][hapmap];1.00[GIH][hapmap];0.81[TSI][hapmap];0.85[EUR][1000 genomes]
rs7106736	0.83[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs7107742	1.00[CEU][hapmap];0.85[LWK][hapmap];0.85[MEX][hapmap];0.81[TSI][hapmap];0.83[YRI][hapmap];0.85[EUR][1000 genomes]
rs7108178	1.00[CEU][hapmap];1.00[GIH][hapmap];0.87[LWK][hapmap];0.85[MEX][hapmap];0.81[TSI][hapmap];0.93[YRI][hapmap];0.81[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs7110517	0.85[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs7118039	1.00[CEU][hapmap];1.00[GIH][hapmap];0.81[TSI][hapmap];0.85[EUR][1000 genomes]
rs7118293	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7118569	0.85[EUR][1000 genomes]
rs7122123	0.85[EUR][1000 genomes]
rs7126727	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs7128716	0.88[CEU][hapmap];0.87[EUR][1000 genomes]
rs72997623	0.92[EUR][1000 genomes]
rs72997677	0.84[EUR][1000 genomes]
rs7933235	1.00[CEU][hapmap];1.00[GIH][hapmap];0.87[LWK][hapmap];0.85[MEX][hapmap];0.81[TSI][hapmap];0.93[YRI][hapmap];0.85[EUR][1000 genomes]
rs7937642	0.84[EUR][1000 genomes]
rs7944950	0.87[EUR][1000 genomes]
rs7947418	1.00[CEU][hapmap];1.00[GIH][hapmap];0.81[TSI][hapmap];0.85[EUR][1000 genomes]
rs7947512	0.92[AMR][1000 genomes];0.97[EUR][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	esv3381903	chr11:75123498-75587233	Bivalent Enhancer Strong transcription Enhancers Bivalent/Poised TSS Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	81 gene(s)	inside rSNPs	diseases
2	nsv897924	chr11:75424546-75678647	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
3	nsv897925	chr11:75456134-75556323	Active TSS Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:75478000-75481800	Enhancers	Fetal Heart	heart
2	chr11:75479000-75482600	Flanking Active TSS	Liver	Liver
3	chr11:75479400-75482400	Active TSS	Brain Anterior Caudate	brain
4	chr11:75480000-75483600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
5	chr11:75480200-75481800	Flanking Active TSS	GM12878-XiMat	blood
6	chr11:75480600-75482400	Weak transcription	Hela-S3	cervix
7	chr11:75480600-75482600	Flanking Active TSS	HepG2	liver
8	chr11:75480600-75488600	Weak transcription	Gastric	stomach
9	chr11:75480600-75491200	Weak transcription	Pancreas	Pancrea
10	chr11:75480600-75491400	Weak transcription	Right Ventricle	heart
11	chr11:75480600-75496400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr11:75480800-75481800	Active TSS	Esophagus	oesophagus
13	chr11:75480800-75482200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
14	chr11:75480800-75483000	Enhancers	Duodenum Mucosa	Duodenum
15	chr11:75480800-75485800	Weak transcription	Right Atrium	heart
16	chr11:75480800-75486800	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
17	chr11:75481000-75483800	Flanking Active TSS	Adipose Nuclei	Adipose
18	chr11:75481000-75491600	Enhancers	Primary monocytes fromperipheralblood	blood
19	chr11:75481000-75506600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
20	chr11:75481200-75482200	Flanking Active TSS	Fetal Intestine Large	intestine
21	chr11:75481200-75482800	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr11:75481400-75481800	Enhancers	Placenta Amnion	Placenta Amnion
23	chr11:75481400-75482200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr11:75481400-75482200	Weak transcription	Lung	lung
25	chr11:75481400-75483800	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr11:75481400-75493800	Weak transcription	Stomach Mucosa	stomach
27	chr11:75481600-75481800	Active TSS	Primary B cells from cord blood	blood
28	chr11:75481600-75482400	Enhancers	Fetal Intestine Small	intestine
29	chr11:75481600-75482600	Weak transcription	Spleen	Spleen
30	chr11:75481600-75483000	Weak transcription	Primary B cells from peripheral blood	blood
31	chr11:75481600-75483600	Enhancers	Placenta	Placenta
32	chr11:75481600-75484800	Weak transcription	Brain Cingulate Gyrus	brain

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