Variant report

Variant	rs2083560
Chromosome Location	chr9:21680460-21680461
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs11999970	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13287072	0.89[ASN][1000 genomes]
rs1478058	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16938532	0.85[ASN][1000 genomes]
rs16938533	0.85[ASN][1000 genomes]
rs1869205	0.82[CHB][hapmap]
rs2020334	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2020344	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2039584	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2383200	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2383201	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];0.96[TSI][hapmap];0.92[YRI][hapmap];0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2891163	0.85[ASN][1000 genomes]
rs4147137	0.86[AMR][1000 genomes]
rs4307419	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6475544	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6475546	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7021741	0.90[ASN][1000 genomes]
rs7028436	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7028637	0.86[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs7028950	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7029077	0.86[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs7035252	0.85[ASN][1000 genomes]
rs7035284	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7045371	0.84[AMR][1000 genomes]
rs7852691	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7860632	0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7865123	0.87[CHB][hapmap];0.83[CHD][hapmap];0.85[LWK][hapmap];0.83[MEX][hapmap];0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs7865502	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7866337	0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7866521	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs921560	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1029634	chr9:21542970-21765286	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv1015623	chr9:21579110-21694039	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases
3	nsv892742	chr9:21589041-21707372	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv892743	chr9:21675545-21772064	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:21677200-21684600	Enhancers	Hela-S3	cervix
2	chr9:21678000-21683200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr9:21678000-21688200	Enhancers	HMEC	breast
4	chr9:21678200-21681600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr9:21678200-21681600	Enhancers	NHDF-Ad	bronchial
6	chr9:21678200-21681800	Enhancers	NHEK	skin
7	chr9:21678200-21684000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr9:21678400-21687400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr9:21678600-21681600	Enhancers	Muscle Satellite Cultured Cells	--
10	chr9:21678600-21684600	Enhancers	HUVEC	blood vessel
11	chr9:21679200-21681000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr9:21679400-21681600	Weak transcription	Stomach Mucosa	stomach
13	chr9:21679800-21682600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr9:21680200-21680600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr9:21680400-21681200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr9:21680400-21681600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr9:21680400-21683400	Enhancers	HSMM	muscle
18	chr9:21680400-21684200	Enhancers	NHLF	lung
19	chr9:21680400-21684600	Enhancers	NH-A	brain
20	chr9:21680400-21685000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr9:21680400-21686000	Enhancers	Breast Myoepithelial Primary Cells	Breast
22	chr9:21680400-21688200	Flanking Active TSS	A549	lung
23	chr9:21680400-21688200	Enhancers	Osteobl	bone
24	chr9:21680400-21691000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin

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