Variant report

Variant	rs9870217
Chromosome Location	chr3:134272884-134272885
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	chr3:134270443..134272968-chr3:134275419..134277826,2	MCF-7	breast:

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10804633	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10935122	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12632372	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4396934	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4440162	1.00[AMR][1000 genomes]
rs4560339	1.00[AMR][1000 genomes]
rs4596189	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4955477	1.00[AMR][1000 genomes]
rs4955535	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4955549	1.00[AMR][1000 genomes]
rs6439485	1.00[AMR][1000 genomes]
rs6439486	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6439490	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6439505	1.00[AMR][1000 genomes]
rs6776208	1.00[AMR][1000 genomes]
rs6777283	1.00[AMR][1000 genomes]
rs6805568	1.00[AMR][1000 genomes]
rs6805896	1.00[AMR][1000 genomes]
rs6806608	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7356009	1.00[AMR][1000 genomes]
rs7372999	1.00[AMR][1000 genomes]
rs7373651	1.00[AFR][1000 genomes]
rs7609638	1.00[AMR][1000 genomes]
rs7609727	1.00[AMR][1000 genomes]
rs7633582	1.00[AMR][1000 genomes]
rs9289473	1.00[AMR][1000 genomes]
rs9289477	1.00[AMR][1000 genomes]
rs9844020	1.00[AFR][1000 genomes];1.00[AMR][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	nsv877510	chr3:134126150-134400448	Bivalent Enhancer Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
2	nsv877511	chr3:134174071-134358947	Flanking Active TSS ZNF genes & repeats Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
3	nsv877512	chr3:134174071-134372486	Enhancers Strong transcription ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
4	nsv877513	chr3:134174071-134379752	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
5	nsv877514	chr3:134191938-134372486	ZNF genes & repeats Weak transcription Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
6	nsv829730	chr3:134199097-134359544	Genic enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
7	nsv1002382	chr3:134239191-134358001	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:134246200-134280800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:134246600-134281800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr3:134250400-134282000	Weak transcription	Stomach Mucosa	stomach
4	chr3:134253200-134280000	Weak transcription	NH-A	brain
5	chr3:134256600-134287200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr3:134256800-134274400	Weak transcription	Fetal Heart	heart
7	chr3:134256800-134274800	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr3:134256800-134280800	Weak transcription	Right Ventricle	heart
9	chr3:134264600-134273000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
10	chr3:134265200-134273000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr3:134267000-134275600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr3:134267800-134281200	Weak transcription	A549	lung
13	chr3:134269800-134273400	Weak transcription	Hela-S3	cervix
14	chr3:134269800-134278000	Weak transcription	Fetal Stomach	stomach
15	chr3:134269800-134278400	Weak transcription	Fetal Intestine Small	intestine
16	chr3:134269800-134278600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr3:134269800-134278600	Weak transcription	Esophagus	oesophagus
18	chr3:134269800-134279400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
19	chr3:134269800-134280800	Weak transcription	Gastric	stomach
20	chr3:134269800-134281800	Weak transcription	H9 Cell Line	embryonic stem cell
21	chr3:134269800-134282800	Weak transcription	NHLF	lung
22	chr3:134269800-134286400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr3:134269800-134296600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr3:134270000-134274000	Weak transcription	NHDF-Ad	bronchial
25	chr3:134270000-134280600	Weak transcription	Brain Cingulate Gyrus	brain
26	chr3:134270000-134282800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr3:134270000-134283000	Weak transcription	Small Intestine	intestine
28	chr3:134270000-134286000	Weak transcription	Psoas Muscle	Psoas
29	chr3:134270200-134277400	Weak transcription	GM12878-XiMat	blood
30	chr3:134270200-134277600	Weak transcription	Brain Angular Gyrus	brain
31	chr3:134270200-134280800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
32	chr3:134270200-134281800	Weak transcription	NHEK	skin
33	chr3:134270400-134278600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
34	chr3:134270400-134279400	Weak transcription	Fetal Lung	lung
35	chr3:134270400-134280800	Weak transcription	Skeletal Muscle Male	skeletal muscle
36	chr3:134270400-134281000	Weak transcription	Fetal Kidney	kidney
37	chr3:134270600-134285200	Weak transcription	Brain Germinal Matrix	brain
38	chr3:134271200-134276600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr3:134271200-134276600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
40	chr3:134271200-134278200	Weak transcription	HepG2	liver
41	chr3:134271200-134280800	Weak transcription	Thymus	Thymus
42	chr3:134271200-134282600	Weak transcription	Rectal Smooth Muscle	rectum
43	chr3:134271200-134284800	Weak transcription	Placenta Amnion	Placenta Amnion
44	chr3:134271400-134277200	Weak transcription	Fetal Muscle Leg	muscle
45	chr3:134271400-134277200	Weak transcription	Left Ventricle	heart
46	chr3:134271400-134277400	Weak transcription	Aorta	Aorta
47	chr3:134271400-134277600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
48	chr3:134271400-134277600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
49	chr3:134271400-134277600	Weak transcription	Sigmoid Colon	Sigmoid Colon
50	chr3:134271400-134278600	Weak transcription	Pancreas	Pancrea

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