Variant report

Variant	rs472175
Chromosome Location	chr9:15246212-15246213
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	chr9:15238862..15241119-chr9:15243843..15246423,2	MCF-7	breast:

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs12001476	1.00[AMR][1000 genomes]
rs12001490	1.00[AMR][1000 genomes]
rs12005366	1.00[AMR][1000 genomes]
rs1419144	1.00[AMR][1000 genomes]
rs1787674	1.00[AMR][1000 genomes]
rs1787675	1.00[AMR][1000 genomes]
rs2805012	1.00[AMR][1000 genomes]
rs517956	1.00[AMR][1000 genomes]
rs539932	1.00[AMR][1000 genomes]
rs606058	1.00[AMR][1000 genomes]
rs606084	1.00[AMR][1000 genomes]
rs61755266	1.00[AFR][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	nsv1031340	chr9:15163004-15332769	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv521191	chr9:15218947-15246652	Strong transcription Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:59 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:15193400-15249600	Weak transcription	Colonic Mucosa	Colon
2	chr9:15223400-15258200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr9:15232600-15246400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr9:15238400-15275400	Weak transcription	Fetal Intestine Large	intestine
5	chr9:15239000-15247000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr9:15240200-15246800	Weak transcription	Primary T helper cells PMA-I stimulated	--
7	chr9:15240200-15248800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr9:15240200-15250800	Weak transcription	Primary T cells fromperipheralblood	blood
9	chr9:15240400-15248800	Weak transcription	HepG2	liver
10	chr9:15240400-15249400	Weak transcription	Spleen	Spleen
11	chr9:15240400-15265600	Weak transcription	Rectal Smooth Muscle	rectum
12	chr9:15240600-15275400	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr9:15241200-15246600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
14	chr9:15241200-15273400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
15	chr9:15241200-15286200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
16	chr9:15242400-15247200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr9:15242600-15250200	Enhancers	Osteobl	bone
18	chr9:15242800-15248800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr9:15243000-15293400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
20	chr9:15243200-15246400	Weak transcription	HUES6 Cell Line	embryonic stem cell
21	chr9:15243200-15246400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr9:15243200-15246400	Weak transcription	NHEK	skin
23	chr9:15243400-15253600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
24	chr9:15243800-15246400	Weak transcription	NHLF	lung
25	chr9:15244200-15246800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr9:15244200-15247000	Enhancers	iPS-20b Cell Line	embryonic stem cell
27	chr9:15244200-15248200	Weak transcription	Colon Smooth Muscle	Colon
28	chr9:15244200-15248800	Weak transcription	HSMMtube	muscle
29	chr9:15244200-15249200	Weak transcription	Stomach Smooth Muscle	stomach
30	chr9:15244400-15249400	Weak transcription	Fetal Intestine Small	intestine
31	chr9:15244600-15246400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr9:15244600-15248200	Weak transcription	Fetal Kidney	kidney
33	chr9:15244600-15248800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr9:15244600-15249200	Enhancers	Muscle Satellite Cultured Cells	--
35	chr9:15244600-15273400	Weak transcription	Stomach Mucosa	stomach
36	chr9:15244800-15246400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
37	chr9:15244800-15246400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
38	chr9:15244800-15246400	Weak transcription	H9 Cell Line	embryonic stem cell
39	chr9:15244800-15246400	Weak transcription	HUES48 Cell Line	embryonic stem cell
40	chr9:15244800-15246400	Weak transcription	Hela-S3	cervix
41	chr9:15244800-15246600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr9:15244800-15248000	Weak transcription	Brain Angular Gyrus	brain
43	chr9:15244800-15248200	Weak transcription	Small Intestine	intestine
44	chr9:15244800-15248800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
45	chr9:15244800-15249200	Weak transcription	Fetal Lung	lung
46	chr9:15244800-15249200	Weak transcription	Fetal Stomach	stomach
47	chr9:15244800-15249400	Weak transcription	Sigmoid Colon	Sigmoid Colon
48	chr9:15244800-15249600	Weak transcription	Ovary	ovary
49	chr9:15244800-15253400	Weak transcription	Primary T cells from cord blood	blood
50	chr9:15245000-15246400	Weak transcription	iPS-18 Cell Line	embryonic stem cell

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