Variant report

Variant	rs11196782
Chromosome Location	chr10:116302495-116302496
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	chr10:116299755..116302305-chr10:116302434..116304411,2	MCF-7	breast:

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10159807	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10159811	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10159857	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10749167	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10749168	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10787533	0.96[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.94[YRI][hapmap];0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10787534	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10787535	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10787538	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10885574	0.96[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.94[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10885576	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10885578	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10885579	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10885581	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10885582	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10885583	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10885585	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10885586	0.84[EUR][1000 genomes]
rs11196783	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11196784	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11196786	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11196790	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11196794	0.81[EUR][1000 genomes]
rs11196796	0.85[EUR][1000 genomes]
rs11196797	0.85[EUR][1000 genomes]
rs12357781	0.89[EUR][1000 genomes]
rs12772307	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1333686	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1333690	0.81[EUR][1000 genomes]
rs2483535	0.89[YRI][hapmap]
rs2483539	0.89[YRI][hapmap]
rs2483541	0.89[YRI][hapmap]
rs2483543	0.89[YRI][hapmap]
rs2483544	0.89[YRI][hapmap]
rs2483548	0.89[YRI][hapmap]
rs2483552	0.84[YRI][hapmap]
rs2483553	0.89[YRI][hapmap]
rs2497725	0.90[YRI][hapmap]
rs2497730	0.89[YRI][hapmap]
rs2497731	0.89[YRI][hapmap]
rs2497735	0.88[YRI][hapmap]
rs4751583	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7893570	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7923449	0.82[CEU][hapmap];0.94[CHB][hapmap];0.93[JPT][hapmap];0.84[YRI][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[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	nsv1037308	chr10:116141946-116519765	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv540780	chr10:116141946-116519765	Enhancers Genic enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:81 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:116287200-116307200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr10:116287400-116303200	Weak transcription	Brain Anterior Caudate	brain
3	chr10:116287400-116303800	Weak transcription	Rectal Smooth Muscle	rectum
4	chr10:116287400-116310600	Weak transcription	Brain Angular Gyrus	brain
5	chr10:116287400-116310600	Weak transcription	Stomach Smooth Muscle	stomach
6	chr10:116292400-116303800	Weak transcription	Pancreas	Pancrea
7	chr10:116296600-116303600	Enhancers	Fetal Thymus	thymus
8	chr10:116296800-116303400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
9	chr10:116297600-116305200	Enhancers	Dnd41	blood
10	chr10:116297600-116308600	Enhancers	Primary B cells from peripheral blood	blood
11	chr10:116297800-116308600	Enhancers	Stomach Mucosa	stomach
12	chr10:116298000-116302800	Enhancers	Right Atrium	heart
13	chr10:116298000-116308800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
14	chr10:116298200-116302600	Weak transcription	HUVEC	blood vessel
15	chr10:116298200-116307800	Strong transcription	Fetal Intestine Small	intestine
16	chr10:116298400-116303600	Weak transcription	Cortex derived primary cultured neurospheres	brain
17	chr10:116298400-116307200	Strong transcription	Liver	Liver
18	chr10:116298400-116307600	Weak transcription	Brain Substantia Nigra	brain
19	chr10:116298400-116310200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr10:116298600-116303200	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
21	chr10:116298600-116303400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
22	chr10:116298600-116303400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
23	chr10:116298600-116303400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
24	chr10:116298600-116304800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr10:116298600-116311600	Weak transcription	Gastric	stomach
26	chr10:116298800-116303400	Weak transcription	Primary hematopoietic stem cells	blood
27	chr10:116298800-116310400	Weak transcription	Small Intestine	intestine
28	chr10:116298800-116310600	Weak transcription	Colonic Mucosa	Colon
29	chr10:116299600-116308200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr10:116299800-116308800	Genic enhancers	Left Ventricle	heart
31	chr10:116300000-116303400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
32	chr10:116300000-116304000	Genic enhancers	Right Ventricle	heart
33	chr10:116300000-116306400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
34	chr10:116300200-116304000	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr10:116300200-116307400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
36	chr10:116300400-116307600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr10:116300600-116302600	Enhancers	Rectal Mucosa Donor 31	rectum
38	chr10:116300600-116303400	Weak transcription	Brain Cingulate Gyrus	brain
39	chr10:116300600-116310600	Weak transcription	Brain Hippocampus Middle	brain
40	chr10:116300800-116304400	Strong transcription	Pancreatic Islets	Pancreatic Islet
41	chr10:116300800-116305000	Enhancers	Sigmoid Colon	Sigmoid Colon
42	chr10:116301000-116303600	Weak transcription	Adipose Nuclei	Adipose
43	chr10:116301400-116303400	Enhancers	Primary T helper cells fromperipheralblood	blood
44	chr10:116301400-116303600	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
45	chr10:116301400-116303600	Weak transcription	Skeletal Muscle Male	skeletal muscle
46	chr10:116301600-116303200	Weak transcription	Rectal Mucosa Donor 29	rectum
47	chr10:116301600-116303600	Weak transcription	Fetal Intestine Large	intestine
48	chr10:116301600-116303600	Enhancers	Thymus	Thymus
49	chr10:116301600-116304000	Genic enhancers	Esophagus	oesophagus
50	chr10:116301800-116302600	Weak transcription	Duodenum Mucosa	Duodenum

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