Variant report

Variant	rs9396175
Chromosome Location	chr6:56021085-56021086
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:56020919..56023138-chr6:56026048..56027819,2	MCF-7	breast:

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs1011277	0.82[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[ASN][1000 genomes]
rs1016719	0.82[CEU][hapmap];0.87[CHB][hapmap];0.89[JPT][hapmap]
rs11970688	0.95[ASN][1000 genomes]
rs1474698	0.88[CHB][hapmap];0.94[JPT][hapmap];0.87[ASN][1000 genomes]
rs1925145	0.83[CHB][hapmap];0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs1925152	0.89[JPT][hapmap]
rs1925165	0.82[CHB][hapmap]
rs1925166	0.82[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[ASN][1000 genomes]
rs1925170	0.83[CHB][hapmap]
rs1925174	0.81[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.95[ASN][1000 genomes]
rs1925175	0.81[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[ASN][1000 genomes]
rs1998699	0.82[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.95[ASN][1000 genomes]
rs1998700	0.94[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2076473	0.83[CHB][hapmap]
rs2223598	0.90[JPT][hapmap]
rs2235735	0.82[CEU][hapmap];0.87[CHB][hapmap];0.89[JPT][hapmap]
rs2397203	0.81[CEU][hapmap];0.81[CHB][hapmap]
rs3823468	0.82[CEU][hapmap];0.87[CHB][hapmap];0.89[JPT][hapmap]
rs3846919	0.82[CHB][hapmap]
rs3846926	0.82[ASN][1000 genomes]
rs3899394	0.87[ASN][1000 genomes]
rs4310058	0.89[JPT][hapmap]
rs4374814	0.87[ASN][1000 genomes]
rs4612164	0.81[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs4712116	0.81[ASN][1000 genomes]
rs4712120	0.89[JPT][hapmap]
rs4715577	0.83[CHB][hapmap]
rs4715580	0.82[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[ASN][1000 genomes]
rs4715583	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs4715584	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs4715590	0.87[ASN][1000 genomes]
rs4715596	0.80[ASN][1000 genomes]
rs6459130	0.89[ASN][1000 genomes]
rs6920461	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs6926301	0.89[ASN][1000 genomes]
rs6927562	0.82[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.92[ASN][1000 genomes]
rs6936386	0.89[ASN][1000 genomes]
rs761104	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs761105	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs764517	0.99[ASN][1000 genomes]
rs7741903	0.90[JPT][hapmap]
rs7776118	0.93[JPT][hapmap]
rs926534	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs926535	0.97[ASN][1000 genomes]
rs9296827	0.81[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.81[ASN][1000 genomes]
rs9296831	0.83[CHB][hapmap]
rs9296832	0.84[JPT][hapmap]
rs9296833	0.84[JPT][hapmap]
rs9349804	0.83[CHB][hapmap];0.84[JPT][hapmap]
rs9357887	0.81[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs9357893	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs9367676	0.86[CHB][hapmap]
rs9370479	0.82[CHB][hapmap]
rs9370482	0.82[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs9382584	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs9396173	0.82[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs9475556	0.82[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap]
rs9475558	0.82[CEU][hapmap];0.87[CHB][hapmap];0.90[JPT][hapmap]
rs9475564	0.89[ASN][1000 genomes]
rs9475565	0.89[ASN][1000 genomes]
rs9475583	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs9475586	0.95[ASN][1000 genomes]
rs9475641	0.84[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1034037	chr6:55222409-56069600	Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv885911	chr6:55789704-56143231	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
3	nsv526703	chr6:55810482-56023811	Enhancers Strong transcription Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:55984000-56037000	Weak transcription	Fetal Kidney	kidney
2	chr6:55999000-56021200	Weak transcription	Aorta	Aorta
3	chr6:56013000-56036400	Weak transcription	Colon Smooth Muscle	Colon
4	chr6:56019400-56023400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr6:56019600-56021800	Strong transcription	Fetal Muscle Leg	muscle
6	chr6:56019800-56021800	Strong transcription	Fetal Muscle Trunk	muscle
7	chr6:56020000-56021800	Strong transcription	Fetal Lung	lung
8	chr6:56020000-56023400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr6:56020200-56021800	Enhancers	HepG2	liver
10	chr6:56020400-56026000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr6:56020600-56021800	Strong transcription	Ovary	ovary
12	chr6:56021000-56021600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr6:56021000-56021600	Strong transcription	Stomach Smooth Muscle	stomach
14	chr6:56021000-56021800	Enhancers	Fetal Stomach	stomach

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