Variant report

Variant	rs2026660
Chromosome Location	chr9:15999958-15999959
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10962193	0.89[JPT][hapmap]
rs10962194	0.86[JPT][hapmap]
rs11999303	0.89[JPT][hapmap]
rs12005062	0.89[JPT][hapmap]
rs12682932	0.89[YRI][hapmap]
rs12683523	0.88[CHB][hapmap]
rs12683980	0.88[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.86[AFR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12684042	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12684785	0.84[ASW][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs12684808	0.84[ASW][hapmap];0.88[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];0.82[ASN][1000 genomes]
rs12684919	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12685476	0.84[ASW][hapmap];0.88[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.81[YRI][hapmap];0.83[AFR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12686591	0.88[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1328266	0.92[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs1328267	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1328268	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1536685	0.89[JPT][hapmap];1.00[EUR][1000 genomes]
rs16933805	0.86[CHB][hapmap];0.89[JPT][hapmap];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16933814	0.89[JPT][hapmap];0.90[YRI][hapmap];1.00[EUR][1000 genomes]
rs16933967	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs16933968	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs16933971	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs16933973	0.87[ASN][1000 genomes]
rs16933974	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2066291	0.90[YRI][hapmap]
rs2382550	0.89[AFR][1000 genomes]
rs2987082	0.81[AFR][1000 genomes]
rs3008718	0.81[AFR][1000 genomes]
rs3008722	0.82[AFR][1000 genomes]
rs3008725	0.82[AFR][1000 genomes]
rs3124457	0.83[AFR][1000 genomes]
rs59923163	1.00[EUR][1000 genomes]
rs60354508	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6475000	0.83[AFR][1000 genomes]
rs7040071	1.00[CHD][hapmap];0.86[GIH][hapmap];1.00[TSI][hapmap]
rs7040928	0.80[AFR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7044984	0.89[JPT][hapmap];0.90[YRI][hapmap];1.00[EUR][1000 genomes]
rs73411567	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73411570	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73411572	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7866472	0.89[JPT][hapmap];0.90[YRI][hapmap];1.00[EUR][1000 genomes]
rs7866699	0.89[JPT][hapmap];0.90[YRI][hapmap]
rs7867018	0.86[CHB][hapmap];0.89[YRI][hapmap]

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	nsv892625	chr9:15326251-16064850	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv892637	chr9:15926508-16060746	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv949463	chr9:15970668-16377360	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv831521	chr9:15974174-16106565	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:15999000-16001200	Enhancers	NHLF	lung
2	chr9:15999000-16001600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr9:15999000-16003200	Enhancers	NHDF-Ad	bronchial
4	chr9:15999000-16003600	Enhancers	HMEC	breast
5	chr9:15999200-16000000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr9:15999200-16001600	Enhancers	NHEK	skin
7	chr9:15999400-16000200	Flanking Active TSS	Muscle Satellite Cultured Cells	--
8	chr9:15999400-16000200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr9:15999400-16000200	Flanking Active TSS	NH-A	brain
10	chr9:15999400-16000400	Enhancers	HUVEC	blood vessel
11	chr9:15999400-16000600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr9:15999400-16000600	Enhancers	HSMM	muscle
13	chr9:15999400-16001600	Enhancers	Hela-S3	cervix
14	chr9:15999400-16002400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr9:15999400-16002400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr9:15999400-16002800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr9:15999600-16000000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
18	chr9:15999600-16000000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr9:15999600-16000000	Enhancers	A549	lung
20	chr9:15999600-16000200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr9:15999600-16000200	Enhancers	Placenta Amnion	Placenta Amnion
22	chr9:15999600-16000600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr9:15999800-16000000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr9:15999800-16003600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr9:15999800-16003600	Enhancers	Osteobl	bone
26	chr9:15999800-16003800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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