Variant report

Variant	rs6885220
Chromosome Location	chr5:1842210-1842211
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:1839174..1841241-chr5:1841860..1844355,2	MCF-7	breast:
2	chr5:1632744..1634438-chr5:1841510..1844390,2	MCF-7	breast:
3	chr5:1840714..1843819-chr5:1881397..1884877,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000113430	Chromatin interaction
ENSG00000249116	Chromatin interaction
ENSG00000188002	Chromatin interaction

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10037336	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10045048	1.00[ASN][1000 genomes]
rs10051882	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10058270	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10062133	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10070488	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10078791	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10085011	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10475110	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10475112	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10475113	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11505118	1.00[ASN][1000 genomes]
rs11505119	1.00[ASN][1000 genomes]
rs13361288	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16884830	1.00[ASN][1000 genomes]
rs16901194	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28402979	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28573163	1.00[ASN][1000 genomes]
rs28609097	1.00[ASN][1000 genomes]
rs2883061	1.00[ASN][1000 genomes]
rs464685	0.88[EUR][1000 genomes]
rs58926651	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59515251	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60876329	1.00[EUR][1000 genomes]
rs6555013	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6861074	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6861795	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6862138	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6862330	1.00[ASN][1000 genomes]
rs6862520	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6864000	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6866992	1.00[ASN][1000 genomes]
rs6875087	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6880349	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6881273	0.83[EUR][1000 genomes]
rs6881623	0.85[EUR][1000 genomes]
rs6888753	1.00[ASN][1000 genomes]
rs6899016	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73732314	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73734916	1.00[ASN][1000 genomes]
rs73734940	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73734941	1.00[ASN][1000 genomes]
rs7707424	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7709350	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7711522	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7718031	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7723998	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7725178	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs924462	1.00[ASN][1000 genomes]
rs9312955	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933805	chr5:1450724-1941619	Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Strong transcription Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	96 gene(s)	inside rSNPs	diseases
2	nsv817407	chr5:1495354-2191460	Weak transcription Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	107 gene(s)	inside rSNPs	diseases
3	nsv1034552	chr5:1658338-1856553	Enhancers Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	44 gene(s)	inside rSNPs	diseases
4	nsv537606	chr5:1658338-1856553	Enhancers Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Weak transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	44 gene(s)	inside rSNPs	diseases
5	nsv869236	chr5:1719263-2259100	Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Enhancers Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	66 gene(s)	inside rSNPs	diseases
6	nsv461911	chr5:1820557-1855301	Strong transcription Bivalent Enhancer Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
7	nsv596890	chr5:1820557-1855301	Enhancers Strong transcription Bivalent Enhancer Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
8	nsv596891	chr5:1822326-1880891	Bivalent Enhancer Weak transcription Bivalent/Poised TSS Strong transcription Active TSS Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
9	nsv880647	chr5:1822326-1880891	Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers ZNF genes & repeats Bivalent/Poised TSS Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
10	nsv881619	chr5:1822326-1886471	Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
11	nsv881557	chr5:1822326-1932463	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
12	nsv596892	chr5:1832240-1892759	Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
13	nsv1019713	chr5:1833072-1884738	Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
14	nsv596893	chr5:1839498-1892759	Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Enhancers Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:1827600-1854000	Weak transcription	Right Atrium	heart
2	chr5:1836600-1843000	Enhancers	Fetal Heart	heart
3	chr5:1841400-1842800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr5:1841600-1844800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr5:1841800-1846800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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