Variant report

Variant	rs11633974
Chromosome Location	chr15:39927152-39927153
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	chr15:39926188..39928117-chr15:39960668..39962621,2	MCF-7	breast:
2	chr15:39926150..39927736-chr15:39954644..39957261,2	MCF-7	breast:

Extended variants
information (count: 85 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs1004739	1.00[CEU][hapmap];1.00[CHB][hapmap];0.80[CHD][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1004740	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[CHD][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1004741	0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10520135	0.87[CEU][hapmap]
rs10520137	1.00[CEU][hapmap]
rs11070220	1.00[CEU][hapmap]
rs11070222	1.00[CEU][hapmap]
rs11070223	1.00[CEU][hapmap]
rs11070225	1.00[CEU][hapmap]
rs1134485	1.00[CEU][hapmap]
rs11630406	1.00[CEU][hapmap];0.82[JPT][hapmap]
rs11631570	1.00[CEU][hapmap];0.94[CHB][hapmap]
rs11632879	1.00[CEU][hapmap];0.82[JPT][hapmap]
rs11635103	1.00[CEU][hapmap];0.82[JPT][hapmap]
rs11638041	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11638500	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11638558	0.98[AFR][1000 genomes]
rs11852591	1.00[CEU][hapmap];0.81[JPT][hapmap]
rs11852649	1.00[CEU][hapmap];0.82[JPT][hapmap]
rs11854797	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs11856294	1.00[CEU][hapmap];1.00[CHB][hapmap];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11856448	0.88[CHB][hapmap]
rs11856971	1.00[CEU][hapmap]
rs11857819	1.00[CEU][hapmap]
rs11857927	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12908846	1.00[CEU][hapmap]
rs12912082	1.00[CEU][hapmap]
rs16969386	1.00[CEU][hapmap]
rs16969410	1.00[CEU][hapmap]
rs16969445	1.00[CEU][hapmap];1.00[CHB][hapmap];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs16969459	1.00[CEU][hapmap];0.82[JPT][hapmap]
rs16969460	1.00[CEU][hapmap];0.94[CHB][hapmap];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs16969475	1.00[CEU][hapmap];0.87[GIH][hapmap];0.86[MKK][hapmap];0.82[TSI][hapmap]
rs16969478	1.00[CEU][hapmap];0.86[GIH][hapmap];0.86[MKK][hapmap];0.86[TSI][hapmap]
rs16969495	0.89[CHB][hapmap]
rs16969637	0.89[CHB][hapmap]
rs16969640	0.89[CHB][hapmap]
rs1876853	1.00[CEU][hapmap];0.87[GIH][hapmap];0.86[MKK][hapmap];0.86[TSI][hapmap]
rs2228261	1.00[CEU][hapmap]
rs2292305	1.00[CEU][hapmap]
rs2411312	0.90[TSI][hapmap];0.81[EUR][1000 genomes]
rs2411313	1.00[CEU][hapmap]
rs2412409	1.00[CEU][hapmap];0.94[CHB][hapmap];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2412410	0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2412411	0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2412413	1.00[CEU][hapmap];0.87[GIH][hapmap];0.86[TSI][hapmap]
rs2412415	1.00[CEU][hapmap];0.82[JPT][hapmap]
rs2412417	1.00[CEU][hapmap];0.81[JPT][hapmap]
rs2412419	1.00[CEU][hapmap]
rs2898686	1.00[CEU][hapmap]
rs2898687	1.00[CEU][hapmap];0.87[GIH][hapmap];0.86[MKK][hapmap];0.86[TSI][hapmap]
rs2898688	1.00[CEU][hapmap];0.82[JPT][hapmap]
rs34275067	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35754803	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3784390	1.00[CEU][hapmap];0.82[GIH][hapmap];0.89[TSI][hapmap];0.87[EUR][1000 genomes]
rs4349120	1.00[CEU][hapmap];0.82[JPT][hapmap]
rs4476147	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[CHD][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4547308	1.00[CEU][hapmap];0.81[JPT][hapmap]
rs4583211	1.00[CEU][hapmap];0.81[JPT][hapmap]
rs56722485	0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs57969006	0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs58332880	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs60884629	0.91[EUR][1000 genomes]
rs7162070	1.00[CEU][hapmap];0.87[GIH][hapmap];0.86[MKK][hapmap];0.86[TSI][hapmap]
rs7162781	1.00[CEU][hapmap];0.87[GIH][hapmap];0.86[TSI][hapmap]
rs7167184	1.00[CEU][hapmap]
rs7168755	1.00[CEU][hapmap];0.81[JPT][hapmap]
rs7169478	1.00[CEU][hapmap]
rs7169574	1.00[CEU][hapmap]
rs72725045	0.87[EUR][1000 genomes]
rs753599	1.00[CEU][hapmap]
rs8029602	1.00[CEU][hapmap];0.87[GIH][hapmap];0.86[MKK][hapmap];0.86[TSI][hapmap]
rs8032035	1.00[CEU][hapmap]
rs8036376	0.88[CEU][hapmap]
rs8036633	0.88[CEU][hapmap]
rs884584	1.00[CEU][hapmap];0.87[GIH][hapmap];0.86[TSI][hapmap]
rs999393	0.81[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049682	chr15:39657279-40027403	Enhancers Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv542361	chr15:39657279-40027403	Weak transcription Strong transcription Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	esv3373125	chr15:39691567-40061262	Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Bivalent/Poised TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
4	nsv904094	chr15:39738006-39976057	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
5	nsv832977	chr15:39817512-39981520	Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
6	nsv1048628	chr15:39877498-39940104	Enhancers Genic enhancers Strong transcription ZNF genes & repeats Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
7	nsv1502	chr15:39884314-39928968	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
8	nsv832978	chr15:39899759-40094881	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:39916400-39937800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr15:39921400-39937600	Weak transcription	Psoas Muscle	Psoas
3	chr15:39923800-39939600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr15:39924200-39932200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr15:39925400-39929600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
6	chr15:39926400-39934400	Weak transcription	Pancreas	Pancrea

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