Variant report

Variant	rs9885668
Chromosome Location	chr6:54556865-54556866
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:54556132..54558033-chr6:54708676..54711461,2	MCF-7	breast:

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10447377	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10807475	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10948830	0.81[ASN][1000 genomes]
rs10948842	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11757171	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11964037	0.95[ASN][1000 genomes]
rs11967781	0.80[CEU][hapmap];0.84[EUR][1000 genomes]
rs12211545	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12215844	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13193002	1.00[CHB][hapmap];0.93[JPT][hapmap];0.95[ASN][1000 genomes]
rs13200833	0.83[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs1359009	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1911508	0.97[ASN][1000 genomes]
rs2089411	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2174735	0.95[ASN][1000 genomes]
rs2297804	0.80[CHB][hapmap]
rs6459021	0.81[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.90[YRI][hapmap];0.84[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs6899853	0.80[CHB][hapmap]
rs6908136	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6918290	0.93[ASN][1000 genomes]
rs7746312	0.85[EUR][1000 genomes]
rs925057	0.82[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.95[YRI][hapmap];0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9296764	0.86[EUR][1000 genomes]
rs9464114	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9464116	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9474940	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9474943	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9474944	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9474965	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9474972	0.80[ASN][1000 genomes]
rs9474973	0.89[CHB][hapmap];0.97[ASN][1000 genomes]
rs9474977	0.95[ASN][1000 genomes]
rs9474987	0.95[ASN][1000 genomes]
rs9474991	0.82[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.93[ASN][1000 genomes]
rs981682	0.80[CHB][hapmap]
rs995951	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.95[YRI][hapmap];0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:22 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv885900	chr6:54517968-54852462	Active TSS Bivalent Enhancer Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	esv1813954	chr6:54518364-54557296	Enhancers ZNF genes & repeats Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	esv1813136	chr6:54550530-54557193	Enhancers Weak transcription Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	esv1807602	chr6:54553140-54557193	Bivalent Enhancer Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
5	esv3473995	chr6:54553738-54557493	Enhancers Weak transcription Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
6	esv3473997	chr6:54553854-54557380	Enhancers Bivalent Enhancer Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
7	esv21159	chr6:54553918-54557383	Enhancers Bivalent Enhancer Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
8	esv1804920	chr6:54553922-54557399	Enhancers Bivalent Enhancer Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
9	esv1811098	chr6:54553922-54557399	Enhancers Bivalent Enhancer Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
10	esv1805121	chr6:54553942-54557193	Enhancers Bivalent Enhancer Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
11	esv1805171	chr6:54553942-54557193	Weak transcription Bivalent Enhancer Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
12	esv1809635	chr6:54553942-54557193	Bivalent Enhancer Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
13	esv1812631	chr6:54553942-54557193	Enhancers Bivalent Enhancer Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
14	esv1804438	chr6:54554122-54557296	Enhancers Bivalent Enhancer Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
15	esv1805482	chr6:54554122-54557296	Bivalent Enhancer Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
16	esv1812353	chr6:54554502-54557193	Bivalent Enhancer Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
17	esv2510453	chr6:54555535-54557066	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
18	esv3414743	chr6:54555743-54557741	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
19	esv9697	chr6:54556187-54556998	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
20	esv1963826	chr6:54556249-54556975	Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
21	esv3522116	chr6:54556344-54556875	Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
22	esv4232	chr6:54556381-54556954	Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54556200-54557200	Weak transcription	Stomach Mucosa	stomach

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