Variant report

Variant	rs10419393
Chromosome Location	chr19:41404196-41404197
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr19:41403893..41404465-chr19:41426940..41427721,3	MCF-7	breast:
2	chr19:41399908..41401580-chr19:41403170..41405832,2	K562	blood:
3	chr19:41403631..41404535-chr19:41426743..41427640,3	MCF-7	breast:
4	chr19:41402764..41404298-chr19:41428958..41430909,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000256612	Chromatin interaction

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10406188	0.94[ASN][1000 genomes]
rs10410750	0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10411264	0.91[CHB][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs10411877	0.89[ASN][1000 genomes]
rs10414481	0.94[ASN][1000 genomes]
rs10416968	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10418318	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10421888	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10423165	0.89[ASN][1000 genomes]
rs10424834	0.83[ASN][1000 genomes]
rs10425176	0.91[CEU][hapmap];0.95[CHB][hapmap];0.88[JPT][hapmap]
rs11083577	0.85[ASN][1000 genomes]
rs11083580	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11083582	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11665969	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12973598	0.87[CEU][hapmap];0.86[CHB][hapmap];0.90[JPT][hapmap];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12975382	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12982395	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2316213	0.84[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap]
rs2316215	0.82[ASN][1000 genomes]
rs2644904	0.88[ASN][1000 genomes]
rs28427254	0.81[ASN][1000 genomes]
rs28472879	0.94[ASN][1000 genomes]
rs28503746	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28619553	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2935235	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3797218	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3815714	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3852870	0.82[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3865457	0.84[JPT][hapmap];0.95[ASN][1000 genomes]
rs3869579	0.96[CEU][hapmap];0.95[CHB][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3875159	1.00[CEU][hapmap];0.95[CHB][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap]
rs3909341	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3909342	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4105141	0.91[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs4105142	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4105143	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4142867	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4802095	0.81[CEU][hapmap];0.86[CHB][hapmap];0.80[JPT][hapmap];0.87[ASN][1000 genomes]
rs4803389	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4803390	0.86[ASN][1000 genomes]
rs4803391	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4803393	0.87[CHB][hapmap];1.00[JPT][hapmap]
rs4803400	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.93[MKK][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5007415	0.91[CHB][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs56081734	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs61482096	0.85[ASN][1000 genomes]
rs6508953	0.91[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs67421541	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7252852	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.93[MKK][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7254188	0.97[ASN][1000 genomes]
rs7258590	0.92[AFR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7258728	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7343061	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8103288	0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758500	chr19:41291627-41546068	Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	esv2758762	chr19:41291627-41546068	Bivalent/Poised TSS Active TSS Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
3	nsv1066637	chr19:41309211-41597896	Weak transcription Enhancers Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	esv3337314	chr19:41388910-41534583	ZNF genes & repeats Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
5	nsv960838	chr19:41401531-41413740	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:41402000-41404400	Enhancers	K562	blood
2	chr19:41402600-41405000	Enhancers	Liver	Liver
3	chr19:41403000-41414200	Weak transcription	Lung	lung
4	chr19:41403600-41404800	Enhancers	A549	lung

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