Variant report

Variant	rs9672588
Chromosome Location	chr15:73560241-73560242
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	chr15:73556714..73560483-chr15:73561340..73564858,6	MCF-7	breast:

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10048053	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10438294	0.92[CEU][hapmap];0.88[CHB][hapmap];0.87[JPT][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10467949	0.80[CEU][hapmap];0.93[CHB][hapmap]
rs11072406	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11072409	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1131854	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11633469	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11636241	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11639213	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12050848	1.00[CEU][hapmap];0.94[CHB][hapmap];0.88[JPT][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12708506	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12899246	0.89[CHB][hapmap]
rs12902768	0.92[CEU][hapmap];0.85[EUR][1000 genomes]
rs12907139	1.00[CEU][hapmap];0.88[CHB][hapmap];0.87[JPT][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1479337	0.87[CHB][hapmap]
rs1479340	0.80[CEU][hapmap];0.81[CHB][hapmap];0.80[ASN][1000 genomes]
rs1564345	0.80[CEU][hapmap];0.81[CHB][hapmap];0.81[JPT][hapmap]
rs17829836	0.80[ASN][1000 genomes]
rs1871385	0.92[CEU][hapmap];0.81[CHB][hapmap];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2046017	1.00[CEU][hapmap];0.94[CHB][hapmap];0.81[JPT][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2127277	0.80[CEU][hapmap];0.81[CHB][hapmap];0.81[JPT][hapmap];0.80[ASN][1000 genomes]
rs2194924	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2251205	0.96[CEU][hapmap];0.94[CHB][hapmap];0.88[JPT][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2415147	0.92[CEU][hapmap];0.82[CHB][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2899784	0.80[CEU][hapmap]
rs34013312	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs35450875	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3736510	0.92[CEU][hapmap];0.81[CHB][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3743489	0.91[CEU][hapmap];0.88[CHB][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3784793	1.00[CEU][hapmap];0.83[CHB][hapmap];0.88[JPT][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3784796	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4381562	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4776630	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4777582	0.88[CHB][hapmap]
rs4777589	0.88[CHB][hapmap]
rs4777591	0.83[CHB][hapmap]
rs56157337	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62017779	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6495047	0.82[CHB][hapmap]
rs7164894	0.89[CHB][hapmap]
rs7172021	0.80[CEU][hapmap];0.81[CHB][hapmap];0.81[JPT][hapmap]
rs7172396	0.81[CEU][hapmap];0.81[CHB][hapmap];0.82[JPT][hapmap]
rs7175329	0.88[CHB][hapmap]
rs747872	0.92[CEU][hapmap];0.82[CHB][hapmap];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs747873	0.88[CEU][hapmap];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs8024575	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs8026579	0.89[CHB][hapmap]
rs8027588	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8029106	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs8035063	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs8035925	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs8040516	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs8042700	0.92[CEU][hapmap];0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs922516	0.88[CHB][hapmap]
rs9806496	0.80[ASN][1000 genomes]
rs9920186	0.88[CHB][hapmap]
rs9972523	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[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	nsv525462	chr15:73349633-73563495	Genic enhancers Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv904343	chr15:73396760-73775043	Strong transcription Bivalent Enhancer Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 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	chr15:73520400-73562400	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr15:73520600-73579600	Weak transcription	Colon Smooth Muscle	Colon
3	chr15:73523000-73572200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
4	chr15:73527000-73579400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr15:73527600-73562400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr15:73535200-73588000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr15:73536200-73602000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr15:73536400-73566600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
9	chr15:73536800-73562400	Weak transcription	A549	lung
10	chr15:73537600-73572200	Weak transcription	Fetal Heart	heart
11	chr15:73538000-73593400	Weak transcription	Placenta Amnion	Placenta Amnion
12	chr15:73538200-73562600	Strong transcription	Fetal Intestine Large	intestine
13	chr15:73540000-73565400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
14	chr15:73540000-73584800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr15:73540800-73562400	Weak transcription	HepG2	liver
16	chr15:73543000-73567400	Strong transcription	Rectal Mucosa Donor 29	rectum
17	chr15:73543400-73562800	Weak transcription	Stomach Mucosa	stomach
18	chr15:73544400-73583000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr15:73546800-73563000	Weak transcription	Right Ventricle	heart
20	chr15:73546800-73583000	Weak transcription	Primary T helper cells PMA-I stimulated	--
21	chr15:73546800-73588600	Weak transcription	Spleen	Spleen
22	chr15:73547600-73576600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
23	chr15:73547800-73584600	Weak transcription	Pancreatic Islets	Pancreatic Islet
24	chr15:73548200-73575000	Weak transcription	Gastric	stomach
25	chr15:73548200-73575200	Weak transcription	Pancreas	Pancrea
26	chr15:73548200-73575600	Weak transcription	Esophagus	oesophagus
27	chr15:73548600-73561200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr15:73548600-73562400	Weak transcription	Aorta	Aorta
29	chr15:73549200-73562600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr15:73549200-73565400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr15:73549200-73565400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr15:73549200-73575200	Weak transcription	Brain Germinal Matrix	brain
33	chr15:73549200-73575200	Weak transcription	Lung	lung
34	chr15:73550800-73581400	Weak transcription	HMEC	breast
35	chr15:73551600-73565600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
36	chr15:73552000-73577800	Weak transcription	Psoas Muscle	Psoas
37	chr15:73552200-73561000	Weak transcription	Rectal Smooth Muscle	rectum
38	chr15:73552400-73588200	Weak transcription	Hela-S3	cervix
39	chr15:73552800-73562600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
40	chr15:73552800-73598400	Weak transcription	Small Intestine	intestine
41	chr15:73553200-73561000	Weak transcription	Adipose Nuclei	Adipose
42	chr15:73553200-73562800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr15:73553600-73560400	Weak transcription	Fetal Lung	lung
44	chr15:73553600-73562400	Weak transcription	Sigmoid Colon	Sigmoid Colon
45	chr15:73553800-73561000	Weak transcription	Fetal Brain Female	brain
46	chr15:73553800-73581200	Weak transcription	Primary T cells fromperipheralblood	blood
47	chr15:73554000-73562400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
48	chr15:73555000-73570600	Weak transcription	Liver	Liver
49	chr15:73555200-73575600	Weak transcription	Colonic Mucosa	Colon
50	chr15:73555400-73560800	Weak transcription	HUES6 Cell Line	embryonic stem cell

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