Variant report

Variant	rs12770849
Chromosome Location	chr10:97554047-97554048
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs11592789	0.89[CEU][hapmap]
rs11592809	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11592937	0.83[EUR][1000 genomes]
rs11593038	0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11593693	0.86[AMR][1000 genomes]
rs11594340	0.89[EUR][1000 genomes]
rs11595122	0.89[CEU][hapmap];1.00[YRI][hapmap];0.89[EUR][1000 genomes]
rs11595248	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11596697	1.00[YRI][hapmap]
rs11598540	0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11599779	1.00[YRI][hapmap]
rs12761112	0.86[AMR][1000 genomes]
rs12761960	0.89[CEU][hapmap];1.00[YRI][hapmap];0.87[EUR][1000 genomes]
rs12763743	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12767650	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12770313	0.89[CEU][hapmap];1.00[YRI][hapmap];0.89[EUR][1000 genomes]
rs12774334	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12775780	0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12779833	0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12780375	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12781327	0.86[AMR][1000 genomes]
rs12782273	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1409710	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2275272	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2296690	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3176886	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3176888	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3181115	1.00[YRI][hapmap];0.84[EUR][1000 genomes]
rs34296389	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34533159	0.86[AMR][1000 genomes]
rs34630379	0.83[EUR][1000 genomes]
rs34808745	0.81[EUR][1000 genomes]
rs34832675	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs34833309	0.83[EUR][1000 genomes]
rs34836127	0.87[EUR][1000 genomes]
rs34847853	0.86[AMR][1000 genomes]
rs35051706	0.82[EUR][1000 genomes]
rs35700869	0.89[CEU][hapmap];1.00[YRI][hapmap];0.91[EUR][1000 genomes]
rs35712039	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs35987262	0.85[EUR][1000 genomes]
rs3793746	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3793751	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs55859130	0.90[ASN][1000 genomes]
rs56853511	1.00[ASN][1000 genomes]
rs58636501	0.90[ASN][1000 genomes]
rs68078796	0.91[EUR][1000 genomes]
rs7073937	1.00[CHB][hapmap]
rs71482374	0.89[EUR][1000 genomes]
rs71482376	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71482377	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71482378	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][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	nsv531923	chr10:97366055-97725757	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv895905	chr10:97513362-97686064	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv895906	chr10:97513362-97703650	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats 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	10 gene(s)	inside rSNPs	diseases
4	nsv895907	chr10:97529318-97686064	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
5	nsv1052213	chr10:97536795-97561941	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv895908	chr10:97544513-97724247	Enhancers Active TSS Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97544800-97554200	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr10:97544800-97558200	Weak transcription	Spleen	Spleen
3	chr10:97550600-97557200	Enhancers	Primary B cells from peripheral blood	blood
4	chr10:97550800-97556800	Enhancers	Primary monocytes fromperipheralblood	blood
5	chr10:97551400-97554400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
6	chr10:97551400-97556800	Enhancers	Primary B cells from cord blood	blood
7	chr10:97551800-97554200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr10:97551800-97554200	Enhancers	Adipose Nuclei	Adipose
9	chr10:97551800-97554200	Enhancers	Fetal Muscle Leg	muscle
10	chr10:97551800-97554200	Enhancers	NHDF-Ad	bronchial
11	chr10:97551800-97554800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
12	chr10:97552200-97554400	Enhancers	Skeletal Muscle Male	skeletal muscle
13	chr10:97552200-97555000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
14	chr10:97552200-97555200	Enhancers	Fetal Stomach	stomach
15	chr10:97552200-97556200	Enhancers	HUVEC	blood vessel
16	chr10:97552400-97554400	Enhancers	Placenta	Placenta
17	chr10:97552400-97554800	Enhancers	Primary hematopoietic stem cells	blood
18	chr10:97552800-97557200	Weak transcription	Right Atrium	heart
19	chr10:97553000-97576200	Weak transcription	Stomach Smooth Muscle	stomach
20	chr10:97553200-97557800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr10:97553200-97558000	Weak transcription	HSMMtube	muscle
22	chr10:97553400-97554400	Enhancers	Primary hematopoietic stem cells short term culture	blood
23	chr10:97553400-97554400	Weak transcription	Brain Hippocampus Middle	brain
24	chr10:97553400-97554400	Weak transcription	Colon Smooth Muscle	Colon
25	chr10:97553400-97554600	Weak transcription	Brain Anterior Caudate	brain
26	chr10:97553400-97557800	Weak transcription	Muscle Satellite Cultured Cells	--
27	chr10:97553600-97554400	Weak transcription	Left Ventricle	heart
28	chr10:97553600-97554600	Weak transcription	Brain Substantia Nigra	brain
29	chr10:97553600-97556000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
30	chr10:97553600-97557800	Weak transcription	Osteobl	bone
31	chr10:97553600-97558200	Enhancers	Primary neutrophils fromperipheralblood	blood
32	chr10:97553800-97554800	Enhancers	Aorta	Aorta
33	chr10:97553800-97555200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr10:97553800-97557200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
35	chr10:97554000-97554200	Enhancers	Duodenum Mucosa	Duodenum
36	chr10:97554000-97554200	Enhancers	Duodenum Smooth Muscle	Duodenum
37	chr10:97554000-97554200	Flanking Active TSS	GM12878-XiMat	blood
38	chr10:97554000-97554800	Enhancers	Skeletal Muscle Female	skeletal muscle
39	chr10:97554000-97555200	Enhancers	Small Intestine	intestine

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