Variant report

Variant	rs12267680
Chromosome Location	chr10:90671733-90671734
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 52 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1008719	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10887867	0.84[CEU][hapmap]
rs10887870	0.84[EUR][1000 genomes]
rs11202890	0.84[CEU][hapmap]
rs11202897	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs11202898	1.00[CEU][hapmap];0.99[EUR][1000 genomes]
rs11202899	1.00[CEU][hapmap];0.99[EUR][1000 genomes]
rs11202902	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11202906	0.91[CEU][hapmap];0.83[EUR][1000 genomes]
rs11202907	0.91[CEU][hapmap]
rs11591231	1.00[CEU][hapmap];0.99[EUR][1000 genomes]
rs11595119	0.89[CEU][hapmap]
rs11596205	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1214564	0.91[CEU][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12241401	0.98[EUR][1000 genomes]
rs12248284	0.84[CEU][hapmap]
rs12254084	0.91[CEU][hapmap]
rs12254856	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17114152	0.84[CEU][hapmap]
rs17114327	0.91[CEU][hapmap];0.82[EUR][1000 genomes]
rs2119685	0.91[CEU][hapmap];0.83[EUR][1000 genomes]
rs2439707	0.91[CEU][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2481918	0.91[CEU][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs41284106	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs41317244	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4431933	0.84[CEU][hapmap]
rs45493098	0.98[EUR][1000 genomes]
rs56104559	0.99[EUR][1000 genomes]
rs56228317	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56268252	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57807025	0.99[EUR][1000 genomes]
rs59737591	0.99[EUR][1000 genomes]
rs66478243	0.99[EUR][1000 genomes]
rs7078383	0.91[CEU][hapmap];0.82[EUR][1000 genomes]
rs7085698	0.91[CEU][hapmap];0.84[EUR][1000 genomes]
rs7090631	0.91[CEU][hapmap];0.84[EUR][1000 genomes]
rs7098235	0.91[CEU][hapmap];0.84[EUR][1000 genomes]
rs72809310	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72809311	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72809314	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72809318	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72809335	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs72809337	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs72809342	0.98[EUR][1000 genomes]
rs7897521	0.91[CEU][hapmap];0.82[EUR][1000 genomes]
rs7915393	0.91[CEU][hapmap];0.83[EUR][1000 genomes]
rs988584	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529324	chr10:90198865-90738588	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv1042848	chr10:90466032-91318474	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
3	nsv540741	chr10:90466032-91318474	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
4	nsv831942	chr10:90564697-90730352	Flanking Active TSS Genic enhancers Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
5	nsv831943	chr10:90664836-90865834	Weak transcription Flanking Active TSS Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	15 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	chr10:90642000-90684800	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr10:90642000-90686400	Weak transcription	Brain Cingulate Gyrus	brain
3	chr10:90647400-90675200	Weak transcription	Spleen	Spleen
4	chr10:90647400-90681000	Weak transcription	Aorta	Aorta
5	chr10:90654000-90687400	Weak transcription	Right Ventricle	heart
6	chr10:90655200-90675200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr10:90655200-90701400	Weak transcription	Gastric	stomach
8	chr10:90657400-90676200	Weak transcription	HUES48 Cell Line	embryonic stem cell
9	chr10:90657600-90675400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr10:90657600-90677600	Weak transcription	Lung	lung
11	chr10:90657600-90686400	Weak transcription	Rectal Smooth Muscle	rectum
12	chr10:90658000-90672800	Weak transcription	Pancreatic Islets	Pancreatic Islet
13	chr10:90658600-90686000	Weak transcription	Brain Anterior Caudate	brain
14	chr10:90659600-90689800	Weak transcription	Esophagus	oesophagus
15	chr10:90660400-90674200	Strong transcription	Primary T cells from cord blood	blood
16	chr10:90660400-90695000	Weak transcription	Fetal Brain Male	brain
17	chr10:90660600-90688200	Strong transcription	Dnd41	blood
18	chr10:90661200-90676200	Strong transcription	Fetal Thymus	thymus
19	chr10:90661600-90678400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr10:90661600-90687600	Strong transcription	Primary T helper cells fromperipheralblood	blood
21	chr10:90661600-90688800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
22	chr10:90661600-90692200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr10:90661800-90674200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr10:90662000-90676200	Weak transcription	NH-A	brain
25	chr10:90662000-90683000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr10:90662200-90672000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
27	chr10:90662200-90672800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr10:90662200-90672800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr10:90662400-90671800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr10:90662600-90687600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
31	chr10:90662800-90688800	Strong transcription	Primary B cells from peripheral blood	blood
32	chr10:90663200-90674200	Strong transcription	GM12878-XiMat	blood
33	chr10:90664200-90675200	Weak transcription	Left Ventricle	heart
34	chr10:90664200-90676800	Weak transcription	NHEK	skin
35	chr10:90664200-90694600	Weak transcription	Duodenum Smooth Muscle	Duodenum
36	chr10:90664400-90673800	Strong transcription	Duodenum Mucosa	Duodenum
37	chr10:90664400-90675000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
38	chr10:90664400-90679400	Weak transcription	Thymus	Thymus
39	chr10:90664400-90679600	Weak transcription	Ovary	ovary
40	chr10:90664400-90683800	Weak transcription	Colonic Mucosa	Colon
41	chr10:90664400-90685600	Weak transcription	Monocytes-CD14+_RO01746	blood
42	chr10:90664400-90691200	Weak transcription	Small Intestine	intestine
43	chr10:90664400-90694800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
44	chr10:90664600-90685400	Weak transcription	Fetal Muscle Trunk	muscle
45	chr10:90665000-90671800	Strong transcription	NHLF	lung
46	chr10:90665600-90674800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
47	chr10:90666000-90692200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr10:90666200-90675400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
49	chr10:90666800-90672600	Weak transcription	Fetal Stomach	stomach
50	chr10:90666800-90675200	Weak transcription	Muscle Satellite Cultured Cells	--

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