Variant report

Variant	rs9806709
Chromosome Location	chr15:41950075-41950076
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:41947183..41950563-chr15:41951272..41954029,4	MCF-7	breast:
2	chr15:41945176..41947724-chr15:41947900..41950145,2	MCF-7	breast:
3	chr15:41923065..41924590-chr15:41950066..41951891,2	K562	blood:

Variant related genes	Relation type
ENSG00000174197	Chromatin interaction

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs1043627	0.83[ASN][1000 genomes]
rs1106934	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11070346	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11070349	0.83[ASN][1000 genomes]
rs11853665	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11858843	0.83[ASN][1000 genomes]
rs1197659	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1197687	0.82[ASN][1000 genomes]
rs1197688	0.82[ASN][1000 genomes]
rs1197689	0.84[ASN][1000 genomes]
rs1197690	0.86[ASN][1000 genomes]
rs1197770	0.84[EUR][1000 genomes]
rs1197773	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1206842	0.83[ASN][1000 genomes]
rs1209333	0.86[ASN][1000 genomes]
rs12439771	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12440605	0.83[ASN][1000 genomes]
rs12591253	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12591285	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12595271	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12901742	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1726915	0.86[ASN][1000 genomes]
rs1918312	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1918313	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2077361	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2577949	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28671571	0.81[ASN][1000 genomes]
rs2925340	0.84[ASN][1000 genomes]
rs34769385	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35033220	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35359048	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4923906	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4923907	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4923913	0.84[ASN][1000 genomes]
rs4924573	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs57814590	0.87[ASN][1000 genomes]
rs7168489	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7173779	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7174099	0.81[ASN][1000 genomes]
rs7175346	0.81[ASN][1000 genomes]
rs7177495	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1052902	chr15:41869277-41951572	Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats 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:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:41925000-41952200	Weak transcription	Ovary	ovary
2	chr15:41927000-41951800	Weak transcription	Hela-S3	cervix
3	chr15:41941000-41951400	Weak transcription	Fetal Kidney	kidney
4	chr15:41941200-41952000	Weak transcription	HSMM	muscle
5	chr15:41941600-41952000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr15:41941600-41952000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr15:41943400-41952000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr15:41946400-41951400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr15:41946400-41952000	Weak transcription	Spleen	Spleen
10	chr15:41947200-41951800	Weak transcription	Fetal Intestine Small	intestine
11	chr15:41948400-41952600	Weak transcription	A549	lung
12	chr15:41948600-41951600	Weak transcription	HepG2	liver
13	chr15:41948600-41951800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr15:41948600-41951800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr15:41948600-41951800	Weak transcription	Osteobl	bone
16	chr15:41948600-41952000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr15:41948600-41952000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr15:41948600-41952000	Weak transcription	Fetal Intestine Large	intestine
19	chr15:41948800-41951800	Weak transcription	Muscle Satellite Cultured Cells	--
20	chr15:41948800-41952000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr15:41949000-41952000	Weak transcription	HSMMtube	muscle
22	chr15:41949200-41951000	Weak transcription	Dnd41	blood
23	chr15:41949200-41951600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr15:41949200-41952000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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