Variant report

Variant	rs1563010
Chromosome Location	chr17:15567778-15567779
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	chr17:15565672..15568468-chr17:15583905..15586616,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000221926	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs1563011	1.00[CEU][hapmap];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2074890	0.88[CHB][hapmap]
rs2159084	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3760303	0.88[CHB][hapmap]
rs4792645	0.85[ASN][1000 genomes]
rs55657306	1.00[AFR][1000 genomes]
rs7223879	0.85[ASN][1000 genomes]
rs72819882	0.85[ASN][1000 genomes]
rs72821706	1.00[AFR][1000 genomes]
rs896673	0.88[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv492304	chr17:15043353-15611753	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
2	nsv916652	chr17:15093600-15856310	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
3	nsv1059056	chr17:15294011-15856861	Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
4	nsv457695	chr17:15447364-15611495	Active TSS Enhancers Strong transcription Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
5	nsv574462	chr17:15447364-15611495	Active TSS Flanking Active TSS Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
6	nsv934185	chr17:15552960-16551197	ZNF genes & repeats Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	190 gene(s)	inside rSNPs	diseases
7	nsv520426	chr17:15554561-15647723	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
8	nsv1062951	chr17:15561070-15890644	Weak transcription Strong transcription Active TSS ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
9	nsv522130	chr17:15563393-15592762	Strong transcription Flanking Active TSS Enhancers Active TSS Weak transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
10	nsv518620	chr17:15563393-15608194	Weak transcription Flanking Active TSS Active TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
11	nsv962232	chr17:15565399-15570341	Weak transcription Strong transcription Genic enhancers Enhancers Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:86 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:15554600-15571200	Weak transcription	Liver	Liver
2	chr17:15555000-15587000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr17:15555000-15587000	Weak transcription	Gastric	stomach
4	chr17:15555200-15587000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr17:15555400-15568200	Weak transcription	Rectal Mucosa Donor 29	rectum
6	chr17:15555400-15568200	Weak transcription	Rectal Smooth Muscle	rectum
7	chr17:15555400-15569000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
8	chr17:15555400-15576800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr17:15555400-15585800	Weak transcription	Primary T helper cells fromperipheralblood	blood
10	chr17:15555400-15586600	Weak transcription	Brain Angular Gyrus	brain
11	chr17:15555400-15586600	Weak transcription	Thymus	Thymus
12	chr17:15555400-15587000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr17:15555600-15586800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr17:15555600-15586800	Weak transcription	NHDF-Ad	bronchial
15	chr17:15555600-15587000	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr17:15555600-15587200	Weak transcription	Aorta	Aorta
17	chr17:15556600-15587000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr17:15558800-15586600	Weak transcription	Brain Germinal Matrix	brain
19	chr17:15558800-15587000	Weak transcription	Ovary	ovary
20	chr17:15558800-15587000	Weak transcription	Rectal Mucosa Donor 31	rectum
21	chr17:15558800-15587000	Weak transcription	Sigmoid Colon	Sigmoid Colon
22	chr17:15559000-15585800	Weak transcription	Cortex derived primary cultured neurospheres	brain
23	chr17:15561800-15568600	Strong transcription	Fetal Brain Female	brain
24	chr17:15562600-15586400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr17:15563400-15586800	Weak transcription	Muscle Satellite Cultured Cells	--
26	chr17:15563400-15587000	Weak transcription	Right Ventricle	heart
27	chr17:15563800-15580000	Weak transcription	Skeletal Muscle Female	skeletal muscle
28	chr17:15563800-15586200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
29	chr17:15563800-15587000	Weak transcription	Pancreas	Pancrea
30	chr17:15564000-15567800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
31	chr17:15564000-15587000	Weak transcription	Esophagus	oesophagus
32	chr17:15564400-15568200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr17:15564600-15568000	Strong transcription	HepG2	liver
34	chr17:15564800-15568200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
35	chr17:15565000-15568000	Strong transcription	A549	lung
36	chr17:15565000-15568200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
37	chr17:15565000-15568200	Strong transcription	Primary T cells from cord blood	blood
38	chr17:15565200-15568000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
39	chr17:15565200-15586200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
40	chr17:15565400-15568000	Strong transcription	HUES48 Cell Line	embryonic stem cell
41	chr17:15565400-15580400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
42	chr17:15565600-15568000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
43	chr17:15565600-15568200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
44	chr17:15565800-15568200	Strong transcription	HUES6 Cell Line	embryonic stem cell
45	chr17:15565800-15568200	Strong transcription	Stomach Smooth Muscle	stomach
46	chr17:15566000-15568000	Strong transcription	H9 Cell Line	embryonic stem cell
47	chr17:15566000-15568000	Strong transcription	Osteobl	bone
48	chr17:15566000-15568400	Strong transcription	Fetal Muscle Trunk	muscle
49	chr17:15566000-15568600	Strong transcription	Hela-S3	cervix
50	chr17:15566200-15568000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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