Variant report

Variant	rs2241515
Chromosome Location	chr10:90073986-90073987
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 50 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10887807	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs11202703	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11202705	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11202706	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11202722	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11202726	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs11202731	0.81[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs11202734	0.95[CHB][hapmap];0.87[JPT][hapmap];0.84[ASN][1000 genomes]
rs11528433	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11598623	0.81[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs12217988	0.81[JPT][hapmap]
rs12219687	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12219831	0.82[JPT][hapmap];0.86[YRI][hapmap]
rs12220632	0.95[CHB][hapmap];0.85[JPT][hapmap];0.86[YRI][hapmap];0.87[ASN][1000 genomes]
rs12221213	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12569922	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs12572813	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1426617	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1582223	0.80[ASN][1000 genomes]
rs1582224	0.88[JPT][hapmap]
rs1613409	0.95[CHB][hapmap];0.87[JPT][hapmap];0.84[ASN][1000 genomes]
rs1648512	0.95[CHB][hapmap];0.87[JPT][hapmap];0.86[ASN][1000 genomes]
rs1648523	0.95[CHB][hapmap];0.94[JPT][hapmap];0.80[ASN][1000 genomes]
rs17111200	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1774970	0.81[JPT][hapmap]
rs1774971	0.95[CHB][hapmap];0.88[JPT][hapmap];0.80[ASN][1000 genomes]
rs2195013	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3740279	0.95[CHB][hapmap];0.87[JPT][hapmap];0.88[ASN][1000 genomes]
rs3781201	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs55749454	0.89[AFR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs59513062	0.89[AFR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7075138	0.82[ASN][1000 genomes]
rs7086211	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7097606	0.81[JPT][hapmap]
rs74149704	0.87[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs74149714	0.81[ASN][1000 genomes]
rs74149715	0.81[ASN][1000 genomes]
rs752709	0.89[ASN][1000 genomes]
rs7919335	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs792224	0.82[ASN][1000 genomes]
rs792225	0.95[CHB][hapmap];0.94[JPT][hapmap];0.86[YRI][hapmap];0.87[ASN][1000 genomes]
rs792227	0.87[ASN][1000 genomes]
rs792228	0.87[ASN][1000 genomes]
rs792229	0.81[ASN][1000 genomes]
rs792232	0.88[JPT][hapmap]
rs880793	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs880794	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895879	chr10:90015725-90219298	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv551838	chr10:90058637-90137045	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv482385	chr10:90066140-90259751	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2241515	TBC1D22A	cis	Cerebellum	GTEx

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90057000-90075200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr10:90072200-90074400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
3	chr10:90072200-90074600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr10:90072400-90075600	Weak transcription	Primary B cells from peripheral blood	blood
5	chr10:90072600-90074400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr10:90073200-90074400	Enhancers	Primary hematopoietic stem cells	blood
7	chr10:90073400-90074400	Enhancers	Primary hematopoietic stem cells short term culture	blood
8	chr10:90073400-90074400	Enhancers	Fetal Lung	lung
9	chr10:90073800-90074400	Enhancers	Ovary	ovary

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