Variant report

Variant	rs2860316
Chromosome Location	chr9:15986768-15986769
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 149 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:145)

rs_ID	r²[population]
rs1009468	0.94[CHB][hapmap]
rs10283865	0.84[JPT][hapmap]
rs1080485	0.89[EUR][1000 genomes]
rs10962170	0.94[CHB][hapmap]
rs1169478	0.96[CEU][hapmap];0.89[JPT][hapmap]
rs1169479	0.95[CEU][hapmap];0.86[CHB][hapmap];0.89[JPT][hapmap]
rs1169480	0.96[CEU][hapmap];0.83[CHB][hapmap];0.89[JPT][hapmap]
rs1328265	0.97[EUR][1000 genomes]
rs1328269	0.96[EUR][1000 genomes]
rs1328271	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1328286	0.87[CEU][hapmap]
rs1328288	0.81[CEU][hapmap];0.92[CHB][hapmap];0.94[JPT][hapmap]
rs13298860	0.82[AMR][1000 genomes]
rs13298936	0.82[AMR][1000 genomes]
rs1359950	0.88[EUR][1000 genomes]
rs1359951	0.82[EUR][1000 genomes]
rs1359953	0.81[CEU][hapmap];0.83[CHB][hapmap];0.94[JPT][hapmap]
rs1572978	0.94[CHB][hapmap]
rs1576171	0.98[EUR][1000 genomes]
rs17353213	0.81[AMR][1000 genomes]
rs1891211	0.89[JPT][hapmap]
rs1891212	0.89[JPT][hapmap]
rs1927696	0.80[CEU][hapmap]
rs1927699	0.97[EUR][1000 genomes]
rs1927700	0.98[EUR][1000 genomes]
rs1927701	0.98[EUR][1000 genomes]
rs1927702	0.98[EUR][1000 genomes]
rs1984246	0.83[CHB][hapmap];0.89[JPT][hapmap]
rs2017943	0.97[EUR][1000 genomes]
rs2066292	0.87[CHB][hapmap]
rs2094522	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2149231	0.83[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2153725	0.94[CHB][hapmap]
rs2153726	0.94[CHB][hapmap]
rs2153727	0.94[CHB][hapmap]
rs2185665	0.94[CHB][hapmap]
rs2225181	0.84[CEU][hapmap]
rs2382543	0.98[EUR][1000 genomes]
rs2382544	0.98[EUR][1000 genomes]
rs2382545	0.95[EUR][1000 genomes]
rs2382546	0.87[EUR][1000 genomes]
rs2382547	0.96[EUR][1000 genomes]
rs2382548	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2382553	0.94[CHB][hapmap]
rs2794634	1.00[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap]
rs2794636	1.00[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap]
rs2891007	0.94[CHB][hapmap]
rs2987008	0.86[EUR][1000 genomes]
rs2987009	0.81[CEU][hapmap];0.88[EUR][1000 genomes]
rs2987010	0.83[CEU][hapmap];0.91[EUR][1000 genomes]
rs2987011	0.87[CEU][hapmap];0.91[EUR][1000 genomes]
rs2987012	0.81[CEU][hapmap];0.92[EUR][1000 genomes]
rs2987013	0.87[CEU][hapmap];0.95[EUR][1000 genomes]
rs2987014	0.84[CEU][hapmap];0.93[EUR][1000 genomes]
rs2987016	0.97[EUR][1000 genomes]
rs2987017	0.98[EUR][1000 genomes]
rs2987018	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2987019	0.98[EUR][1000 genomes]
rs2987020	0.97[EUR][1000 genomes]
rs2987021	0.98[EUR][1000 genomes]
rs2987022	0.98[EUR][1000 genomes]
rs2987023	0.98[EUR][1000 genomes]
rs2987024	0.98[EUR][1000 genomes]
rs2987025	0.98[EUR][1000 genomes]
rs2987039	0.97[EUR][1000 genomes]
rs2987041	0.95[EUR][1000 genomes]
rs2987042	0.97[EUR][1000 genomes]
rs2987069	0.84[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs2987070	0.88[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2987071	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2987072	0.84[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs2987079	0.97[EUR][1000 genomes]
rs2987081	0.96[EUR][1000 genomes]
rs2987086	0.96[EUR][1000 genomes]
rs2987090	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2987096	0.96[EUR][1000 genomes]
rs2987098	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2987099	0.91[EUR][1000 genomes]
rs3008666	0.91[EUR][1000 genomes]
rs3008672	0.89[EUR][1000 genomes]
rs3008678	0.80[ASN][1000 genomes]
rs3008681	0.81[CEU][hapmap]
rs3008686	0.96[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap]
rs3008710	0.91[EUR][1000 genomes]
rs3008714	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3008715	0.96[EUR][1000 genomes]
rs3008717	0.96[EUR][1000 genomes]
rs3008719	0.96[EUR][1000 genomes]
rs3008723	0.97[EUR][1000 genomes]
rs3008726	0.96[EUR][1000 genomes]
rs3008727	0.96[EUR][1000 genomes]
rs3008728	0.96[EUR][1000 genomes]
rs3008729	0.94[EUR][1000 genomes]
rs3008730	0.97[EUR][1000 genomes]
rs3008732	0.97[EUR][1000 genomes]
rs3008736	0.98[EUR][1000 genomes]
rs3008739	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs3008742	0.90[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs3008744	0.95[EUR][1000 genomes]
rs3008745	0.94[EUR][1000 genomes]
rs3008747	0.88[CEU][hapmap];0.94[EUR][1000 genomes]
rs3008748	0.88[CEU][hapmap];0.93[EUR][1000 genomes]
rs3008749	0.81[CEU][hapmap];0.92[EUR][1000 genomes]
rs3008753	0.90[EUR][1000 genomes]
rs3118736	0.97[EUR][1000 genomes]
rs3124461	0.80[EUR][1000 genomes]
rs4442245	0.87[EUR][1000 genomes]
rs4475627	0.97[EUR][1000 genomes]
rs6474987	0.97[EUR][1000 genomes]
rs6474988	0.98[EUR][1000 genomes]
rs6474989	0.98[EUR][1000 genomes]
rs7019205	0.94[CHB][hapmap]
rs7023326	0.91[EUR][1000 genomes]
rs7027202	0.83[CHB][hapmap];0.84[JPT][hapmap]
rs7032457	0.94[CHB][hapmap]
rs7032634	0.94[CHB][hapmap]
rs7047045	0.94[CHB][hapmap]
rs723756	0.96[EUR][1000 genomes]
rs735962	0.81[CEU][hapmap]
rs770191	0.87[CEU][hapmap];0.94[CHB][hapmap]
rs770211	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap]
rs770213	1.00[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap]
rs770215	0.88[CEU][hapmap];0.83[CHB][hapmap];0.89[JPT][hapmap]
rs7853744	0.94[CHB][hapmap]
rs7866641	0.94[CHB][hapmap]
rs9298738	0.94[CHB][hapmap]
rs9298739	0.93[CHB][hapmap]
rs9298740	0.94[CHB][hapmap]
rs9298741	0.94[CHB][hapmap]
rs9406537	1.00[CHB][hapmap]
rs9406542	1.00[CHB][hapmap]
rs9406568	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9406569	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9406581	0.94[EUR][1000 genomes]
rs9407648	0.93[CHB][hapmap]
rs9407649	0.94[CHB][hapmap]
rs9407650	0.94[CHB][hapmap]
rs9407651	0.94[CHB][hapmap]
rs9407652	1.00[CHB][hapmap]
rs9407654	0.94[CHB][hapmap]
rs9407657	0.94[CHB][hapmap]
rs9407661	0.94[CHB][hapmap]
rs9407662	0.94[CHB][hapmap]
rs9407697	0.84[EUR][1000 genomes]
rs9407702	0.98[EUR][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	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:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:15952600-15987600	Weak transcription	Primary hematopoietic stem cells	blood
2	chr9:15973200-15988000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr9:15986200-15986800	Enhancers	iPS-15b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links