Variant report

Variant	rs10882452
Chromosome Location	chr10:96177570-96177571
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	chr10:96173417..96176346-chr10:96177510..96181137,5	MCF-7	breast:

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10882454	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10882460	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10882463	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10882471	0.80[EUR][1000 genomes]
rs11187937	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11187939	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11187944	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11187948	0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs11187952	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11187972	0.84[EUR][1000 genomes]
rs11187973	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11187980	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11187996	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11527881	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11592354	0.81[EUR][1000 genomes]
rs12221475	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12572040	0.81[EUR][1000 genomes]
rs12762574	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1749352	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1749355	0.84[AMR][1000 genomes]
rs1889485	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1889486	0.84[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1980741	0.85[EUR][1000 genomes]
rs2095380	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2244241	0.84[AMR][1000 genomes]
rs2265364	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2901765	0.83[EUR][1000 genomes]
rs4351744	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4917505	0.84[EUR][1000 genomes]
rs4918333	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs493088	0.84[ASN][1000 genomes]
rs517784	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs541704	0.84[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs556055	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs581165	0.86[AMR][1000 genomes]
rs6583943	0.82[EUR][1000 genomes]
rs692872	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7073639	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7078236	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7083898	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7089094	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7913343	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7921721	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs8181426	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9420641	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs945123	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs9633699	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2761616	chr10:95966768-96303701	Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv831946	chr10:96055190-96226438	Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	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
4	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
5	esv1815355	chr10:96162545-96189900	Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
6	esv1817623	chr10:96162545-96189900	Enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer	Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:96163800-96184400	Weak transcription	Gastric	stomach
2	chr10:96164600-96180000	Weak transcription	Fetal Intestine Small	intestine
3	chr10:96164800-96182400	Weak transcription	Lung	lung
4	chr10:96164800-96188200	Weak transcription	Right Atrium	heart
5	chr10:96165600-96180600	Weak transcription	Left Ventricle	heart
6	chr10:96169400-96179200	Weak transcription	Pancreas	Pancrea
7	chr10:96169400-96183800	Weak transcription	HSMM	muscle
8	chr10:96171600-96188200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr10:96171800-96183200	Weak transcription	Psoas Muscle	Psoas
10	chr10:96171800-96198200	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr10:96173400-96182600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr10:96173400-96182600	Weak transcription	Osteobl	bone
13	chr10:96173400-96183000	Weak transcription	HSMMtube	muscle
14	chr10:96173400-96183400	Weak transcription	Colon Smooth Muscle	Colon
15	chr10:96173400-96188400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
16	chr10:96173600-96190200	Weak transcription	Cortex derived primary cultured neurospheres	brain
17	chr10:96173800-96183000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr10:96175000-96177600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr10:96175800-96177600	Enhancers	Fetal Kidney	kidney
20	chr10:96176000-96182600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr10:96176200-96181000	Weak transcription	Brain Cingulate Gyrus	brain
22	chr10:96176600-96180800	Weak transcription	Brain Hippocampus Middle	brain
23	chr10:96176600-96181800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
24	chr10:96177000-96179000	Weak transcription	Fetal Lung	lung
25	chr10:96177000-96179600	Weak transcription	Brain Substantia Nigra	brain
26	chr10:96177200-96179200	Weak transcription	Brain Angular Gyrus	brain
27	chr10:96177200-96182400	Weak transcription	Muscle Satellite Cultured Cells	--
28	chr10:96177400-96180800	Weak transcription	Brain Anterior Caudate	brain
29	chr10:96177400-96181000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links