Variant report

Variant	rs2554660
Chromosome Location	chr8:3789272-3789273
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs1426280	0.81[CHB][hapmap];0.85[CHD][hapmap];0.82[GIH][hapmap];0.88[TSI][hapmap]
rs1593488	0.88[CEU][hapmap];0.91[CHB][hapmap];0.83[CHD][hapmap];0.90[GIH][hapmap];0.85[JPT][hapmap];0.95[TSI][hapmap];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1829856	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1834568	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2259076	0.82[CEU][hapmap];0.85[EUR][1000 genomes]
rs2554620	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2554621	0.85[CEU][hapmap];0.86[CHB][hapmap];0.87[GIH][hapmap];0.97[TSI][hapmap];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2554622	0.88[CEU][hapmap];0.91[CHB][hapmap];0.88[CHD][hapmap];0.87[GIH][hapmap];0.95[TSI][hapmap];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2554659	0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];0.96[MEX][hapmap];0.89[MKK][hapmap];0.97[TSI][hapmap]
rs2627526	0.80[ASN][1000 genomes]
rs2627531	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2688267	0.88[CEU][hapmap];0.91[CHB][hapmap];0.90[GIH][hapmap];0.91[JPT][hapmap];0.97[TSI][hapmap];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2688270	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs2688303	0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2688305	0.88[CEU][hapmap];0.87[CHB][hapmap];0.88[CHD][hapmap];0.85[GIH][hapmap];0.85[TSI][hapmap];0.80[ASN][1000 genomes]
rs2688307	0.92[CEU][hapmap];0.86[CHB][hapmap];0.82[CHD][hapmap];0.80[GIH][hapmap];0.82[JPT][hapmap];0.80[ASN][1000 genomes]
rs2930336	0.96[CEU][hapmap];0.95[GIH][hapmap];0.86[JPT][hapmap];0.84[MEX][hapmap];0.88[TSI][hapmap]
rs2948644	0.88[CEU][hapmap]
rs2954605	0.95[CEU][hapmap]
rs2954606	0.96[CEU][hapmap];0.82[JPT][hapmap]
rs2954607	1.00[CEU][hapmap];0.85[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:47 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1034076	chr8:3168033-3989947	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv539351	chr8:3168033-3989947	Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv1017164	chr8:3174168-4026811	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv539352	chr8:3174168-4026811	Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1018218	chr8:3180287-4089011	Active TSS Weak transcription Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv1025204	chr8:3542586-3889592	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
7	nsv539356	chr8:3542586-3889592	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
8	nsv949269	chr8:3556145-4246903	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
9	nsv498034	chr8:3559289-3846288	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
10	nsv1034837	chr8:3623613-3880459	Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
11	nsv932135	chr8:3636535-3909039	ZNF genes & repeats Bivalent Enhancer Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
12	nsv609750	chr8:3663971-3790254	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
13	nsv1018306	chr8:3667329-3843087	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
14	nsv889906	chr8:3674674-3811706	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
15	nsv889907	chr8:3674674-3814493	Bivalent Enhancer ZNF genes & repeats Enhancers Active TSS Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
16	nsv889908	chr8:3674674-3816121	Enhancers ZNF genes & repeats Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
17	nsv889909	chr8:3674674-3817191	Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
18	nsv1020335	chr8:3692864-3796281	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
19	nsv530863	chr8:3710810-4381378	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
20	nsv889912	chr8:3742354-3832731	Weak transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
21	nsv889913	chr8:3747899-3832731	Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
22	nsv1016688	chr8:3754417-4003761	Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
23	nsv539364	chr8:3754417-4003761	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
24	nsv1018362	chr8:3763280-3811123	Weak transcription Enhancers ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
25	nsv1027153	chr8:3769850-3790094	Enhancers	n/a	n/a	inside rSNPs	diseases
26	nsv6053	chr8:3770507-3802316	Enhancers Weak transcription ZNF genes & repeats	n/a	n/a	inside rSNPs	diseases
27	nsv1022903	chr8:3772322-3790094	Enhancers	n/a	n/a	inside rSNPs	diseases
28	nsv1026720	chr8:3773935-3790094	Enhancers	n/a	n/a	inside rSNPs	diseases
29	nsv1033130	chr8:3776864-3789986	Enhancers	n/a	n/a	inside rSNPs	diseases
30	nsv1033289	chr8:3776864-3790094	Enhancers	n/a	n/a	inside rSNPs	diseases
31	esv2761185	chr8:3776864-3790106	Enhancers	n/a	n/a	inside rSNPs	diseases
32	nsv889914	chr8:3778455-3791362	Enhancers	n/a	n/a	inside rSNPs	diseases
33	nsv609753	chr8:3779535-3790267	Enhancers	n/a	n/a	inside rSNPs	diseases
34	nsv889915	chr8:3780119-3791362	Enhancers	n/a	n/a	inside rSNPs	diseases
35	nsv516708	chr8:3781893-3791362	Enhancers	n/a	n/a	inside rSNPs	diseases
36	nsv889916	chr8:3781893-3791362	Enhancers	n/a	n/a	inside rSNPs	diseases
37	nsv889917	chr8:3781893-3792688	Enhancers Weak transcription	n/a	n/a	inside rSNPs	diseases
38	nsv889918	chr8:3783344-3792688	Weak transcription Enhancers	n/a	n/a	inside rSNPs	diseases
39	nsv889919	chr8:3783344-3793600	Weak transcription Enhancers	n/a	n/a	inside rSNPs	diseases
40	nsv889920	chr8:3783471-3792481	Weak transcription Enhancers	n/a	n/a	inside rSNPs	diseases
41	nsv436589	chr8:3785635-3792316	Weak transcription Enhancers	n/a	n/a	inside rSNPs	diseases
42	nsv609759	chr8:3786543-3792688	Weak transcription Enhancers	n/a	n/a	inside rSNPs	diseases
43	nsv609781	chr8:3788450-3791362	Enhancers	n/a	n/a	inside rSNPs	diseases
44	nsv609785	chr8:3788500-3791362	Enhancers	n/a	n/a	inside rSNPs	diseases
45	nsv889921	chr8:3788599-3806885	Enhancers Weak transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
46	nsv609790	chr8:3789177-3791362	Enhancers	n/a	n/a	inside rSNPs	diseases
47	nsv609791	chr8:3789177-3797879	Enhancers ZNF genes & repeats Weak transcription	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:0 , 50 per page) page:

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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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