Variant report

Variant	rs17294609
Chromosome Location	chr11:10230486-10230487
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:10229449..10231323-chr11:10326514..10328045,2	MCF-7	breast:
2	chr11:10229392..10230937-chr11:10329172..10330174,5	MCF-7	breast:
3	chr11:10226516..10229103-chr11:10229118..10231466,3	MCF-7	breast:
4	chr11:10228745..10232588-chr11:10322997..10326616,6	MCF-7	breast:
5	chr11:10228277..10231249-chr11:10328543..10331201,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000133805	Chromatin interaction
ENSG00000148926	Chromatin interaction
ENSG00000254554	Chromatin interaction

Extended variants
information (count: 121 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:119)

rs_ID	r²[population]
rs12279871	0.91[CEU][hapmap]
rs1372810	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1450265	1.00[CEU][hapmap];1.00[ASN][1000 genomes]
rs1450266	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1450268	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1450275	0.90[CEU][hapmap];0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1450276	0.91[CEU][hapmap];1.00[ASN][1000 genomes]
rs16907654	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17292774	1.00[CEU][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17294693	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17295786	1.00[CEU][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17296211	1.00[CEU][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17296765	0.95[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17358721	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17358882	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17359382	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17360118	1.00[CEU][hapmap];0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28733206	1.00[ASN][1000 genomes]
rs2920149	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2957657	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4077089	1.00[CEU][hapmap];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4403799	0.82[EUR][1000 genomes]
rs61877039	1.00[ASN][1000 genomes]
rs61877042	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61877044	1.00[ASN][1000 genomes]
rs61877046	1.00[ASN][1000 genomes]
rs61877050	1.00[ASN][1000 genomes]
rs61877054	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61877263	0.86[EUR][1000 genomes]
rs61877264	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61878586	1.00[ASN][1000 genomes]
rs61878635	0.82[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs61878652	0.85[EUR][1000 genomes]
rs61878654	0.97[AFR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61878655	0.97[AFR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61878657	0.97[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61878658	0.97[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61878659	0.97[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61880160	0.97[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61889783	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61889785	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61889795	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61889796	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61889802	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61889815	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61889816	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61889817	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61889836	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61889840	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61889842	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61889843	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61889845	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61889846	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61889847	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61889956	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs61889957	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61891762	1.00[ASN][1000 genomes]
rs61891764	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61891767	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61891768	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61891770	0.95[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61891771	0.95[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs61891773	0.95[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61891775	0.82[EUR][1000 genomes]
rs61891776	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61891793	1.00[ASN][1000 genomes]
rs61892569	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61892570	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61892572	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61892573	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61892575	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61892593	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61892594	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61892595	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61892596	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61892597	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6484142	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs66553354	1.00[ASN][1000 genomes]
rs7103637	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7104591	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7105355	0.97[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7107373	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7108187	1.00[ASN][1000 genomes]
rs7108385	1.00[CEU][hapmap];1.00[ASN][1000 genomes]
rs7108546	0.91[AFR][1000 genomes]
rs7109096	0.95[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7111544	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7111647	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7119001	1.00[CEU][hapmap]
rs7120043	0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7122370	0.84[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7123467	0.97[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs7123541	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7125823	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7129220	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7131546	1.00[CEU][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72850458	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72851648	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72851670	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72851674	1.00[ASN][1000 genomes]
rs72858820	1.00[ASN][1000 genomes]
rs72858863	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72858902	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72861738	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72861762	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72861767	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72861799	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7929332	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7930218	1.00[CEU][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7933724	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7935257	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7939096	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7939531	0.80[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7941557	0.81[EUR][1000 genomes]
rs7945990	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7947210	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7949974	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs896043	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9705133	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]

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	nsv430319	chr11:10027543-10711224	Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	75 gene(s)	inside rSNPs	diseases
2	nsv1039636	chr11:10126747-10280570	Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:10219000-10242200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr11:10227400-10235600	Weak transcription	Psoas Muscle	Psoas
3	chr11:10227400-10240000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr11:10227600-10232200	Weak transcription	Right Atrium	heart
5	chr11:10227600-10240200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr11:10227800-10239800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr11:10227800-10240000	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr11:10227800-10242600	Weak transcription	Esophagus	oesophagus
9	chr11:10228800-10232200	Enhancers	Fetal Lung	lung
10	chr11:10229400-10231200	Enhancers	HepG2	liver
11	chr11:10229600-10231000	Enhancers	Dnd41	blood
12	chr11:10229600-10240200	Weak transcription	Fetal Stomach	stomach
13	chr11:10229800-10230600	Weak transcription	Liver	Liver
14	chr11:10229800-10231400	Weak transcription	Ovary	ovary
15	chr11:10229800-10231600	Weak transcription	Gastric	stomach
16	chr11:10230000-10231400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr11:10230000-10231800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr11:10230200-10230600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr11:10230200-10240000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr11:10230200-10240000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr11:10230200-10240200	Weak transcription	Cortex derived primary cultured neurospheres	brain
22	chr11:10230200-10240600	Weak transcription	A549	lung
23	chr11:10230400-10230800	Enhancers	Pancreatic Islets	Pancreatic Islet
24	chr11:10230400-10230800	Weak transcription	NHDF-Ad	bronchial
25	chr11:10230400-10230800	Weak transcription	NHLF	lung
26	chr11:10230400-10236400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

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