Variant report

Variant	rs7019602
Chromosome Location	chr9:97651128-97651129
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	chr9:97649888..97652305-chr9:97683979..97686393,2	MCF-7	breast:

Extended variants
information (count: 120 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:119)

rs_ID	r²[population]
rs10125566	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1020962	1.00[CEU][hapmap]
rs10217441	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1038092	1.00[CEU][hapmap]
rs10732407	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10733756	0.82[EUR][1000 genomes]
rs10739988	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10739990	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10739991	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10761362	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];0.88[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs10761363	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10761371	1.00[CEU][hapmap]
rs10821407	0.83[AMR][1000 genomes]
rs10821411	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10993386	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1113967	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12551506	0.84[AMR][1000 genomes]
rs12552838	0.84[AMR][1000 genomes]
rs12554043	1.00[MEX][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes]
rs12555128	1.00[CHD][hapmap];1.00[GIH][hapmap];0.88[MEX][hapmap];1.00[TSI][hapmap]
rs12683896	0.84[AMR][1000 genomes]
rs1530331	1.00[MEX][hapmap];0.85[TSI][hapmap];0.83[AMR][1000 genomes]
rs1542107	1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1542108	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1564235	1.00[CEU][hapmap]
rs1571896	1.00[CEU][hapmap]
rs16911834	0.84[AMR][1000 genomes]
rs1871220	1.00[CEU][hapmap]
rs1888944	1.00[CEU][hapmap]
rs1904201	0.81[AMR][1000 genomes]
rs191654	0.85[EUR][1000 genomes]
rs2026399	1.00[MEX][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes]
rs2061798	1.00[CEU][hapmap]
rs2061799	1.00[CEU][hapmap]
rs2061801	1.00[CEU][hapmap]
rs2095069	1.00[MEX][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes]
rs2099868	0.85[EUR][1000 genomes]
rs2119953	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2165715	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap];0.85[EUR][1000 genomes]
rs2406897	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2406898	0.89[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2584805	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.88[MEX][hapmap];0.85[TSI][hapmap];0.85[EUR][1000 genomes]
rs2897523	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs356125	1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs356128	1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs356132	0.85[EUR][1000 genomes]
rs356133	1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs356136	0.85[EUR][1000 genomes]
rs356139	0.85[EUR][1000 genomes]
rs356145	0.85[EUR][1000 genomes]
rs356147	1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs356148	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.88[MEX][hapmap];0.85[TSI][hapmap];0.85[EUR][1000 genomes]
rs356149	0.85[EUR][1000 genomes]
rs365465	0.85[EUR][1000 genomes]
rs367319	0.85[EUR][1000 genomes]
rs3739748	1.00[CEU][hapmap]
rs3847311	0.97[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3886568	1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3887267	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.88[MEX][hapmap];0.85[TSI][hapmap]
rs3910730	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4332191	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs438742	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.88[MEX][hapmap];0.85[TSI][hapmap];0.85[EUR][1000 genomes]
rs448899	0.85[EUR][1000 genomes]
rs456276	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.85[TSI][hapmap];0.85[EUR][1000 genomes]
rs457795	1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs4743968	0.85[EUR][1000 genomes]
rs4743972	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4743973	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4743975	1.00[CEU][hapmap]
rs4743977	1.00[CEU][hapmap]
rs4744382	0.85[EUR][1000 genomes]
rs4744387	0.83[AMR][1000 genomes]
rs4744388	0.85[EUR][1000 genomes]
rs4744389	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4744402	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4744421	1.00[CEU][hapmap]
rs555799	0.82[EUR][1000 genomes]
rs562605	1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs60120	1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs6479569	1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs6479574	1.00[CHB][hapmap]
rs6479575	0.85[EUR][1000 genomes]
rs6479576	0.83[AMR][1000 genomes]
rs6479578	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.88[MEX][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6479579	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6479581	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6479582	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6479583	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs66993340	0.81[AMR][1000 genomes]
rs67208365	0.85[EUR][1000 genomes]
rs67490803	0.84[AMR][1000 genomes]
rs68090960	0.85[EUR][1000 genomes]
rs7022963	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.88[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs7023719	1.00[CEU][hapmap]
rs7025100	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7025934	0.81[AMR][1000 genomes]
rs7026714	0.83[AMR][1000 genomes]
rs7029570	1.00[MEX][hapmap];0.85[TSI][hapmap];0.84[AMR][1000 genomes]
rs7030703	0.84[AMR][1000 genomes]
rs7031637	0.88[AMR][1000 genomes]
rs7035166	1.00[MEX][hapmap];0.85[TSI][hapmap];0.83[AMR][1000 genomes]
rs7038519	0.83[AMR][1000 genomes]
rs7038891	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.88[MEX][hapmap];0.85[TSI][hapmap];0.85[EUR][1000 genomes]
rs7044371	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7046900	0.84[AMR][1000 genomes]
rs7047478	0.85[EUR][1000 genomes]
rs72748601	0.84[AMR][1000 genomes]
rs7341710	0.85[EUR][1000 genomes]
rs7852844	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7855781	1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs7864389	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7867856	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.88[MEX][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7869736	1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7870679	0.83[AMR][1000 genomes]
rs894425	1.00[CHB][hapmap]
rs894426	1.00[CEU][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs894427	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs894428	0.83[AMR][1000 genomes]
rs9409805	0.85[EUR][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	nsv933919	chr9:97619512-97919344	Weak transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	293 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97633400-97671800	Weak transcription	Esophagus	oesophagus
2	chr9:97638600-97661800	Weak transcription	Fetal Intestine Small	intestine
3	chr9:97644400-97652000	Weak transcription	Right Atrium	heart
4	chr9:97645600-97653200	Weak transcription	Fetal Brain Male	brain
5	chr9:97648000-97652800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr9:97648000-97652800	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr9:97648000-97657400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr9:97648400-97653000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr9:97648400-97656400	Weak transcription	NH-A	brain
10	chr9:97648400-97657400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr9:97648600-97651800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr9:97648600-97652000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr9:97648600-97653400	Weak transcription	Brain Hippocampus Middle	brain
14	chr9:97648600-97654600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr9:97648600-97654600	Weak transcription	Pancreas	Pancrea
16	chr9:97648600-97654800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr9:97648600-97656000	Weak transcription	Liver	Liver
18	chr9:97648800-97652600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr9:97648800-97652800	Weak transcription	Fetal Lung	lung
20	chr9:97648800-97653200	Weak transcription	HSMM	muscle
21	chr9:97650400-97654600	Weak transcription	Osteobl	bone
22	chr9:97650400-97655800	Weak transcription	Stomach Mucosa	stomach
23	chr9:97650600-97652800	Weak transcription	Muscle Satellite Cultured Cells	--
24	chr9:97650600-97654200	ZNF genes & repeats	A549	lung
25	chr9:97650600-97656000	Weak transcription	NHLF	lung
26	chr9:97651000-97655400	Weak transcription	Hela-S3	cervix

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