Variant report

Variant	rs9894490
Chromosome Location	chr17:66969429-66969430
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr17:66963587..66965320-chr17:66967793..66970228,2	MCF-7	breast:

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs11077858	0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11077859	0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11077860	0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11077884	0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11453	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12939564	0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12940103	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12942599	0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12943969	0.80[EUR][1000 genomes]
rs1541470	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16973495	0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2191212	0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2191213	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2302292	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2302293	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2302294	0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs36096265	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4548939	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4968983	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6501947	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7207125	0.93[AFR][1000 genomes];0.81[AMR][1000 genomes];0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7215642	0.80[EUR][1000 genomes]
rs7218871	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8068236	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8070357	0.94[AFR][1000 genomes];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9303006	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1067334	chr17:66695039-67221585	Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Enhancers Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases
2	nsv543411	chr17:66695039-67221585	Flanking Active TSS Strong transcription Enhancers Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases
3	nsv1061151	chr17:66881617-66973917	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv908700	chr17:66885526-66985992	ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
5	nsv908701	chr17:66888346-66978319	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	esv1849165	chr17:66899261-66978319	Enhancers Strong transcription Flanking Active TSS Weak transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
7	nsv908703	chr17:66904001-66978319	Weak transcription Active TSS Enhancers Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:66965600-66973200	Weak transcription	Brain Substantia Nigra	brain
2	chr17:66965600-66977600	Weak transcription	Brain Cingulate Gyrus	brain
3	chr17:66965600-66980200	Weak transcription	Brain Anterior Caudate	brain
4	chr17:66965600-66986000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr17:66966200-66977200	Weak transcription	Fetal Muscle Leg	muscle
6	chr17:66966800-66972000	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr17:66967800-66969600	Enhancers	Liver	Liver
8	chr17:66968200-66969600	Enhancers	Adipose Nuclei	Adipose
9	chr17:66968200-66971800	Weak transcription	Skeletal Muscle Male	skeletal muscle
10	chr17:66968400-66972600	Weak transcription	Fetal Lung	lung
11	chr17:66968400-66977200	Weak transcription	NHDF-Ad	bronchial
12	chr17:66969200-66969600	Enhancers	Primary monocytes fromperipheralblood	blood
13	chr17:66969200-66969600	Enhancers	Ovary	ovary
14	chr17:66969200-66969600	Enhancers	HepG2	liver
15	chr17:66969200-66969800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr17:66969200-66969800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
17	chr17:66969200-66970000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr17:66969200-66970000	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr17:66969200-66970000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr17:66969200-66970400	Enhancers	Primary hematopoietic stem cells short term culture	blood
21	chr17:66969200-66971200	Weak transcription	Skeletal Muscle Female	skeletal muscle
22	chr17:66969200-66982800	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr17:66969400-66969800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr17:66969400-66970000	Enhancers	Primary hematopoietic stem cells	blood
25	chr17:66969400-66972400	Weak transcription	Fetal Muscle Trunk	muscle

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