Variant report

Variant	rs10899124
Chromosome Location	chr11:75515399-75515400
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:75511055..75516378-chr11:75524946..75527964,8	MCF-7	breast:
2	chr11:75512671..75516260-chr11:75524397..75526274,3	MCF-7	breast:
3	chr11:75510774..75513236-chr11:75514739..75516644,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000198382	Chromatin interaction
ENSG00000255507	Chromatin interaction

Extended variants
information (count: 121 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:118)

rs_ID	r²[population]
rs10160802	0.90[CEU][hapmap]
rs1017713	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10219339	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10793124	0.81[CEU][hapmap];0.86[CHB][hapmap];0.87[JPT][hapmap];0.87[ASN][1000 genomes]
rs10793125	0.83[CEU][hapmap];0.86[CHB][hapmap];0.87[JPT][hapmap];0.87[ASN][1000 genomes]
rs10793126	0.87[ASN][1000 genomes]
rs10793127	0.93[ASN][1000 genomes]
rs10793132	0.91[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10793133	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10793135	1.00[CEU][hapmap];0.85[CHB][hapmap];0.87[JPT][hapmap];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10899105	0.80[ASN][1000 genomes]
rs10899109	0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10899110	0.83[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap];0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10899113	0.88[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs10899114	0.83[CEU][hapmap]
rs10899116	0.90[CEU][hapmap];0.93[CHB][hapmap];0.87[JPT][hapmap];0.93[YRI][hapmap];0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs10899118	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs10899119	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10899120	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10899121	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10899122	0.88[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10899123	0.89[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10899127	0.90[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10899128	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10899129	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10899131	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10899132	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10899133	0.98[ASN][1000 genomes]
rs10899134	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10899135	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10899136	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10899137	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10899138	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10899139	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10899140	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10899141	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10899142	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10899144	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10899145	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11236508	0.80[ASN][1000 genomes]
rs11236509	0.80[ASN][1000 genomes]
rs11236511	0.86[CHB][hapmap];0.87[JPT][hapmap];0.81[ASN][1000 genomes]
rs11236514	0.81[CEU][hapmap];0.86[CHB][hapmap];0.87[JPT][hapmap];0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs11236515	0.81[CEU][hapmap];0.86[CHB][hapmap];0.87[JPT][hapmap];0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs11236516	0.81[CEU][hapmap];0.86[CHB][hapmap];0.87[JPT][hapmap];0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs11236517	0.86[CHB][hapmap];0.81[JPT][hapmap];0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs11236518	0.81[CEU][hapmap];0.86[CHB][hapmap];0.87[JPT][hapmap];0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs11236519	0.93[ASN][1000 genomes]
rs11236527	0.93[ASN][1000 genomes]
rs11236528	0.80[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs11236530	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11236531	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11236533	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11236534	0.91[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11236537	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11236538	0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11236539	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11236540	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11236542	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11236543	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11236545	1.00[CEU][hapmap];0.93[CHB][hapmap];0.93[JPT][hapmap];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11236546	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11236549	1.00[CEU][hapmap];0.92[CHB][hapmap];0.83[JPT][hapmap];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11236551	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11236552	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11236553	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11236554	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11236555	0.91[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11236564	0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11501918	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11821808	0.87[ASN][1000 genomes]
rs11822903	0.80[CEU][hapmap];1.00[CHB][hapmap];0.83[JPT][hapmap];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11823869	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12222542	0.91[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12222995	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12223234	0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12224062	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12278224	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12278257	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12280456	0.83[CEU][hapmap];0.85[CHB][hapmap];0.87[JPT][hapmap];0.81[ASN][1000 genomes]
rs12280464	0.90[CEU][hapmap];0.85[CHB][hapmap];0.87[JPT][hapmap];0.81[ASN][1000 genomes]
rs12285853	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1458836	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17134394	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2004638	0.83[CEU][hapmap]
rs2008476	0.90[CEU][hapmap];0.93[CHB][hapmap];0.87[JPT][hapmap];0.93[ASN][1000 genomes]
rs2168947	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs3060	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs3740849	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3740850	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs58340821	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs58411334	0.93[ASN][1000 genomes]
rs60677263	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs60692776	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6592615	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs66784596	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs67233017	0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs67268976	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7101806	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7106736	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7107742	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7108178	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7110517	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7118039	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7118293	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7118569	0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7122123	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7126727	0.91[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7128716	0.89[CEU][hapmap];0.85[CHB][hapmap];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72995678	0.80[ASN][1000 genomes]
rs72997616	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs72997623	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72997677	0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7933235	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7937642	0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7944950	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7947418	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7947512	0.90[EUR][1000 genomes];0.99[ASN][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

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10899124	RP11-535A19.1	cis	Whole Blood	GTEx
rs10899124	DGAT2	cis	Whole Blood	GTEx

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:75509000-75525200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr11:75509200-75515600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr11:75509800-75525000	Weak transcription	Fetal Stomach	stomach
4	chr11:75512000-75518600	Weak transcription	Stomach Mucosa	stomach
5	chr11:75512200-75521800	Weak transcription	Lung	lung
6	chr11:75512800-75523800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr11:75512800-75525000	Weak transcription	Esophagus	oesophagus
8	chr11:75513000-75517000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr11:75513000-75521400	Weak transcription	Duodenum Mucosa	Duodenum
10	chr11:75513000-75525200	Weak transcription	Fetal Intestine Large	intestine
11	chr11:75513200-75519600	Weak transcription	GM12878-XiMat	blood
12	chr11:75513400-75524600	Weak transcription	Primary T cells from cord blood	blood
13	chr11:75513400-75525000	Weak transcription	Stomach Smooth Muscle	stomach
14	chr11:75513800-75525000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr11:75514400-75519800	Weak transcription	Primary monocytes fromperipheralblood	blood
16	chr11:75514400-75520200	Weak transcription	Adipose Nuclei	Adipose
17	chr11:75514400-75524600	Weak transcription	Fetal Intestine Small	intestine
18	chr11:75514800-75517000	Weak transcription	Brain Angular Gyrus	brain
19	chr11:75514800-75518600	Weak transcription	Primary B cells from peripheral blood	blood
20	chr11:75514800-75520600	Weak transcription	Primary neutrophils fromperipheralblood	blood
21	chr11:75515000-75517000	Weak transcription	Brain Substantia Nigra	brain

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