Variant report

Variant	rs2576159
Chromosome Location	chr10:90296467-90296468
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10509552	0.82[JPT][hapmap]
rs10736351	1.00[YRI][hapmap]
rs1750274	0.86[JPT][hapmap]
rs2185786	0.82[CHB][hapmap];0.86[JPT][hapmap]
rs2209553	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2437875	0.82[CEU][hapmap];0.82[CHB][hapmap];0.87[JPT][hapmap];0.81[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs2477954	0.84[AMR][1000 genomes]
rs2477956	0.82[CHB][hapmap];0.87[JPT][hapmap]
rs2576169	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs2576170	0.82[CEU][hapmap];0.82[CHB][hapmap];0.87[JPT][hapmap];0.81[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs2576171	0.82[CEU][hapmap];0.82[CHB][hapmap];0.87[JPT][hapmap];0.84[AMR][1000 genomes]
rs2576172	0.81[CEU][hapmap];0.82[CHB][hapmap];0.86[JPT][hapmap];0.81[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs2576176	0.81[CEU][hapmap];0.87[JPT][hapmap]
rs2576181	0.82[CHB][hapmap];0.86[JPT][hapmap]
rs2765440	0.91[CHB][hapmap];0.86[JPT][hapmap]
rs2765454	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2765456	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3740279	1.00[YRI][hapmap]

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	nsv948664	chr10:90076715-90517150	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	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
3	nsv825500	chr10:90221443-90302503	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv533167	chr10:90236197-90341481	Flanking Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv430254	chr10:90265420-90500520	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90289000-90297200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr10:90290000-90296600	Weak transcription	HSMM	muscle
3	chr10:90290000-90297000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr10:90291600-90297000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr10:90292000-90296800	Weak transcription	Muscle Satellite Cultured Cells	--
6	chr10:90292000-90297400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr10:90294800-90298000	Weak transcription	Liver	Liver
8	chr10:90296000-90299800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr10:90296200-90297200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr10:90296200-90297200	Weak transcription	Fetal Kidney	kidney
11	chr10:90296200-90298200	Enhancers	Fetal Lung	lung
12	chr10:90296400-90296600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr10:90296400-90296600	Enhancers	Gastric	stomach
14	chr10:90296400-90296600	Enhancers	Psoas Muscle	Psoas
15	chr10:90296400-90297600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
16	chr10:90296400-90298800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr10:90296400-90302400	Enhancers	HSMMtube	muscle

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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