Variant report

Variant	rs17006578
Chromosome Location	chr3:69934331-69934332
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:69934018..69936742-chr3:69940708..69942627,2	MCF-7	breast:
2	chr3:69926471..69928230-chr3:69933145..69935334,2	K562	blood:

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10510993	1.00[ASN][1000 genomes]
rs11128144	1.00[ASN][1000 genomes]
rs11128145	1.00[ASN][1000 genomes]
rs11128146	1.00[ASN][1000 genomes]
rs11128147	1.00[ASN][1000 genomes]
rs11128149	1.00[ASN][1000 genomes]
rs11128150	1.00[ASN][1000 genomes]
rs11128151	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs11128154	0.89[EUR][1000 genomes]
rs12106831	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs12106842	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs12106907	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs12106913	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs12106915	1.00[ASN][1000 genomes]
rs12107208	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs12107258	1.00[ASN][1000 genomes]
rs12107267	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs12107403	1.00[ASN][1000 genomes]
rs12107405	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs12107409	1.00[ASN][1000 genomes]
rs12107473	1.00[ASN][1000 genomes]
rs12107744	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs12108172	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs12108174	1.00[ASN][1000 genomes]
rs1316735	0.84[MKK][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes]
rs1532199	1.00[CHB][hapmap]
rs17006441	1.00[CHB][hapmap]
rs17006565	1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17006574	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17006580	1.00[ASN][1000 genomes]
rs17006582	1.00[ASN][1000 genomes]
rs17006587	1.00[ASN][1000 genomes]
rs17006593	1.00[ASN][1000 genomes]
rs17006595	1.00[ASN][1000 genomes]
rs17006597	1.00[ASN][1000 genomes]
rs17006601	1.00[ASN][1000 genomes]
rs17006609	1.00[ASN][1000 genomes]
rs28480308	0.89[EUR][1000 genomes]
rs61479859	1.00[ASN][1000 genomes]
rs6549252	1.00[CHB][hapmap]
rs724794	1.00[CHB][hapmap];0.90[GIH][hapmap];1.00[TSI][hapmap];1.00[ASN][1000 genomes]
rs73838686	1.00[ASN][1000 genomes]
rs9310177	1.00[CHB][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9820221	1.00[CHB][hapmap];0.89[EUR][1000 genomes]
rs9827888	1.00[CHB][hapmap];0.89[EUR][1000 genomes]
rs9837137	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9840417	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[ASN][1000 genomes]
rs9843596	1.00[CHB][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9843611	1.00[CHB][hapmap];0.81[GIH][hapmap];1.00[TSI][hapmap];0.89[EUR][1000 genomes]
rs9847658	1.00[CHB][hapmap];0.81[GIH][hapmap];1.00[TSI][hapmap];0.89[EUR][1000 genomes]
rs9866423	1.00[CHB][hapmap]
rs9882545	1.00[TSI][hapmap]
rs9882576	1.00[CHB][hapmap]
rs9917631	1.00[CHB][hapmap];0.89[EUR][1000 genomes]
rs9917633	1.00[CHB][hapmap];0.89[EUR][1000 genomes]
rs9917634	1.00[CHB][hapmap];0.89[EUR][1000 genomes]
rs9917686	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs9917798	1.00[ASN][1000 genomes]
rs9941978	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3507784	chr3:69802539-69959607	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	esv3507785	chr3:69802539-69959607	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:69917200-69951200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr3:69920800-69937600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr3:69920800-69950800	Weak transcription	Ovary	ovary
4	chr3:69922200-69936400	Weak transcription	Colon Smooth Muscle	Colon
5	chr3:69922400-69939000	Weak transcription	NHLF	lung
6	chr3:69923000-69935000	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr3:69923000-69937800	Weak transcription	Rectal Smooth Muscle	rectum
8	chr3:69925200-69937000	Weak transcription	Brain Hippocampus Middle	brain
9	chr3:69927000-69937600	Weak transcription	Skeletal Muscle Male	skeletal muscle
10	chr3:69927000-69938200	Weak transcription	Muscle Satellite Cultured Cells	--
11	chr3:69927600-69939200	Weak transcription	Stomach Mucosa	stomach
12	chr3:69928400-69935000	Weak transcription	Psoas Muscle	Psoas
13	chr3:69928600-69938200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr3:69928600-69939000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr3:69928600-69939000	Weak transcription	Right Ventricle	heart
16	chr3:69928600-69942000	Weak transcription	Gastric	stomach
17	chr3:69928600-69950800	Weak transcription	Pancreas	Pancrea
18	chr3:69928600-69951000	Weak transcription	Lung	lung
19	chr3:69931200-69937800	Weak transcription	Duodenum Smooth Muscle	Duodenum
20	chr3:69931800-69937000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
21	chr3:69932200-69936800	Weak transcription	HUES48 Cell Line	embryonic stem cell
22	chr3:69933200-69937600	Weak transcription	Brain Anterior Caudate	brain
23	chr3:69933400-69934600	Strong transcription	Stomach Smooth Muscle	stomach
24	chr3:69933400-69935600	Weak transcription	A549	lung
25	chr3:69933400-69938200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
26	chr3:69933600-69934400	Strong transcription	Monocytes-CD14+_RO01746	blood
27	chr3:69933600-69934600	Genic enhancers	Left Ventricle	heart
28	chr3:69933800-69935000	Weak transcription	Fetal Heart	heart
29	chr3:69933800-69935400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr3:69934000-69934600	Genic enhancers	Adipose Nuclei	Adipose
31	chr3:69934000-69939000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr3:69934200-69934600	Genic enhancers	Aorta	Aorta
33	chr3:69934200-69936200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr3:69934200-69937600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr3:69934200-69939400	Weak transcription	Hela-S3	cervix

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