Variant report

Variant	rs9559707
Chromosome Location	chr13:110661785-110661786
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	chr13:110658379..110661796-chr13:110663475..110666715,3	MCF-7	breast:

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs1333982	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1333987	0.88[EUR][1000 genomes]
rs56296105	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs58503998	0.83[EUR][1000 genomes]
rs72652006	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72652007	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72652014	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72670114	0.87[EUR][1000 genomes]
rs72670117	0.91[EUR][1000 genomes]
rs72670118	0.91[EUR][1000 genomes]
rs72670125	0.91[EUR][1000 genomes]
rs72670128	0.91[EUR][1000 genomes]
rs72670134	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72670135	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72670137	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7330996	0.87[EUR][1000 genomes]
rs7332564	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7999512	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8000641	0.87[EUR][1000 genomes]
rs915017	0.90[EUR][1000 genomes]
rs915018	0.95[EUR][1000 genomes]
rs9555650	0.82[EUR][1000 genomes]
rs9555651	0.82[EUR][1000 genomes]
rs9555653	0.91[EUR][1000 genomes]
rs9555654	0.91[EUR][1000 genomes]
rs9555658	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9555659	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9555660	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9559676	0.87[EUR][1000 genomes]
rs9559677	0.91[EUR][1000 genomes]
rs9559679	0.91[EUR][1000 genomes]
rs9559681	0.89[EUR][1000 genomes]
rs9559688	0.96[EUR][1000 genomes]
rs9559691	0.96[EUR][1000 genomes]
rs9559693	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9559694	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9559695	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9559696	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9559697	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9559698	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9559700	0.81[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9559701	0.81[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9559705	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9559706	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9559708	0.87[ASN][1000 genomes]
rs9588040	0.91[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	nsv1049593	chr13:110615494-110725945	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	esv1842097	chr13:110644990-110680944	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Genic enhancers	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv901004	chr13:110653666-110682916	Enhancers Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Strong transcription	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:110651800-110662800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr13:110653600-110663000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr13:110654000-110664000	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr13:110655000-110662800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr13:110658800-110662800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr13:110658800-110663000	Weak transcription	A549	lung
7	chr13:110659000-110662400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr13:110659000-110662600	Weak transcription	HSMMtube	muscle
9	chr13:110659000-110662600	Weak transcription	Osteobl	bone
10	chr13:110659000-110662800	Weak transcription	Cortex derived primary cultured neurospheres	brain
11	chr13:110659000-110663400	Weak transcription	NHDF-Ad	bronchial
12	chr13:110659200-110662600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr13:110659200-110663000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr13:110659200-110663000	Weak transcription	NH-A	brain
15	chr13:110659200-110664000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr13:110659200-110664200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr13:110659200-110669800	Weak transcription	Pancreas	Pancrea
18	chr13:110659400-110662800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr13:110659400-110662800	Weak transcription	NHEK	skin
20	chr13:110659400-110663000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr13:110660200-110664000	Weak transcription	Hela-S3	cervix
22	chr13:110660600-110662000	Enhancers	Breast Myoepithelial Primary Cells	Breast
23	chr13:110661000-110661800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
24	chr13:110661000-110666800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr13:110661200-110661800	Enhancers	Muscle Satellite Cultured Cells	--
26	chr13:110661200-110669400	Enhancers	HSMM	muscle
27	chr13:110661600-110662600	Weak transcription	HMEC	breast
28	chr13:110661600-110664600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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