Variant report

Variant	rs2089411
Chromosome Location	chr6:54554627-54554628
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10447377	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.83[ASN][1000 genomes]
rs10948842	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11757171	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.81[ASN][1000 genomes]
rs11964037	0.93[ASN][1000 genomes]
rs11967833	0.88[EUR][1000 genomes]
rs12198936	0.90[EUR][1000 genomes]
rs12208090	0.81[GIH][hapmap];0.80[LWK][hapmap];0.89[TSI][hapmap];0.88[EUR][1000 genomes]
rs12211545	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12215844	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12527497	0.89[EUR][1000 genomes]
rs12529276	0.89[EUR][1000 genomes]
rs13193002	1.00[CHB][hapmap];0.93[JPT][hapmap];0.93[ASN][1000 genomes]
rs13200833	0.86[ASN][1000 genomes]
rs1359009	0.83[ASN][1000 genomes]
rs1395632	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1395635	0.90[EUR][1000 genomes]
rs1911508	0.95[ASN][1000 genomes]
rs2174735	0.93[ASN][1000 genomes]
rs34970714	0.89[EUR][1000 genomes]
rs4715469	0.89[EUR][1000 genomes]
rs6459021	1.00[CHB][hapmap];0.96[CHD][hapmap];0.87[GIH][hapmap];0.93[JPT][hapmap];0.95[ASN][1000 genomes]
rs6903280	0.88[EUR][1000 genomes]
rs6906715	0.89[EUR][1000 genomes]
rs6908136	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6918290	0.91[ASN][1000 genomes]
rs925057	1.00[CHB][hapmap];0.93[JPT][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9464114	0.83[ASN][1000 genomes]
rs9464116	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9474940	0.83[ASN][1000 genomes]
rs9474943	0.83[ASN][1000 genomes]
rs9474944	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9474965	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9474973	0.89[CHB][hapmap];0.95[ASN][1000 genomes]
rs9474977	0.93[ASN][1000 genomes]
rs9474987	0.93[ASN][1000 genomes]
rs9474991	1.00[CHB][hapmap];0.93[JPT][hapmap];0.91[ASN][1000 genomes]
rs9885668	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs995951	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];0.93[JPT][hapmap];0.81[TSI][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:17 , 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	esv2760995	chr6:54554082-54554627	Bivalent Enhancer Enhancers	n/a	n/a	inside rSNPs	diseases
15	esv1804438	chr6:54554122-54557296	Enhancers Bivalent Enhancer Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
16	esv1805482	chr6:54554122-54557296	Bivalent Enhancer Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
17	esv1812353	chr6:54554502-54557193	Bivalent Enhancer Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54554000-54554800	Bivalent Enhancer	HUES64 Cell Line	embryonic stem cell
2	chr6:54554000-54555200	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
3	chr6:54554600-54554800	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
4	chr6:54554600-54555000	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
5	chr6:54554600-54555400	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell

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