Variant report

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:79038219..79041033-chr3:79044727..79046943,2	MCF-7	breast:
2	chr3:79037904..79039407-chr3:79067709..79069605,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000169855	Chromatin interaction

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs11127638	1.00[EUR][1000 genomes]
rs11923198	1.00[EUR][1000 genomes]
rs12495750	1.00[YRI][hapmap];1.00[EUR][1000 genomes]
rs13096526	0.86[EUR][1000 genomes]
rs1349023	1.00[EUR][1000 genomes]
rs1349024	1.00[EUR][1000 genomes]
rs1374883	0.92[YRI][hapmap];0.80[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs1374885	0.86[EUR][1000 genomes]
rs1374886	0.81[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs1374887	1.00[EUR][1000 genomes]
rs1374888	1.00[EUR][1000 genomes]
rs1374889	1.00[EUR][1000 genomes]
rs1900663	0.86[EUR][1000 genomes]
rs1947154	1.00[EUR][1000 genomes]
rs2871747	1.00[EUR][1000 genomes]
rs4680946	0.86[EUR][1000 genomes]
rs61586777	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6548603	1.00[EUR][1000 genomes]
rs6548604	0.86[EUR][1000 genomes]
rs6548605	0.86[EUR][1000 genomes]
rs6548606	0.86[EUR][1000 genomes]
rs6774082	1.00[EUR][1000 genomes]
rs6788693	1.00[EUR][1000 genomes]
rs6804234	0.86[EUR][1000 genomes]
rs7625043	0.86[EUR][1000 genomes]
rs7646169	1.00[EUR][1000 genomes]
rs9845900	1.00[EUR][1000 genomes]

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	nsv1010804	chr3:78739648-79087470	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv834744	chr3:78911545-79076470	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv520937	chr3:79025569-79039406	Weak transcription Enhancers Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:79022400-79041600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:79036000-79041200	Weak transcription	H1 Cell Line	embryonic stem cell
3	chr3:79036000-79043600	Weak transcription	Osteobl	bone
4	chr3:79036000-79044200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr3:79036600-79043400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr3:79037000-79040200	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr3:79037000-79040800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr3:79037400-79040600	Weak transcription	HUES6 Cell Line	embryonic stem cell
9	chr3:79037400-79040600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr3:79037600-79039400	Weak transcription	Brain Substantia Nigra	brain
11	chr3:79037600-79040600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr3:79038000-79040800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
13	chr3:79038000-79041200	Weak transcription	Fetal Lung	lung
14	chr3:79038000-79044200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr3:79038200-79042400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
16	chr3:79038400-79040400	Weak transcription	HepG2	liver

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