Variant report

Variant	rs1535762
Chromosome Location	chr9:116739377-116739378
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:116739203..116741852-chr9:116742167..116746206,3	MCF-7	breast:

Extended variants
information (count: 81 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:80)

rs_ID	r²[population]
rs1006540	0.91[CHB][hapmap];0.85[JPT][hapmap]
rs1006541	0.91[CHB][hapmap];0.84[JPT][hapmap]
rs10441747	0.91[CHB][hapmap];0.84[JPT][hapmap]
rs10513224	1.00[CEU][hapmap];0.91[CHB][hapmap];0.84[JPT][hapmap];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10739398	0.90[CHB][hapmap];0.84[JPT][hapmap]
rs10759668	0.91[CHB][hapmap];0.84[JPT][hapmap]
rs10759669	0.96[CHB][hapmap];0.84[JPT][hapmap];0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs10759670	0.87[CHB][hapmap]
rs10759671	0.91[CHB][hapmap]
rs10759672	0.91[CHB][hapmap]
rs10759674	0.90[CHB][hapmap]
rs10759676	0.86[CHB][hapmap];0.84[JPT][hapmap]
rs10817544	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10817545	0.96[CHB][hapmap];0.84[JPT][hapmap];0.83[ASN][1000 genomes]
rs10817546	0.96[CHB][hapmap];0.84[JPT][hapmap];0.83[ASN][1000 genomes]
rs10817547	0.95[CHB][hapmap];0.89[JPT][hapmap];0.85[ASN][1000 genomes]
rs10817548	0.95[CHB][hapmap]
rs10817555	0.87[CHB][hapmap]
rs10982029	0.87[CHB][hapmap];0.84[JPT][hapmap]
rs10982031	0.82[CHB][hapmap]
rs11788583	0.91[CHB][hapmap];0.85[JPT][hapmap]
rs11788633	0.86[CHB][hapmap];0.89[JPT][hapmap]
rs11788661	0.86[CHB][hapmap];0.89[JPT][hapmap]
rs11791155	0.95[CHB][hapmap];0.89[JPT][hapmap];0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs11791230	0.82[CHB][hapmap]
rs12551686	0.87[CHB][hapmap];0.90[JPT][hapmap]
rs12682865	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12686727	0.86[CHB][hapmap];0.84[JPT][hapmap]
rs13298270	0.86[CHB][hapmap];0.84[JPT][hapmap]
rs1330171	0.95[CHB][hapmap];0.89[JPT][hapmap];0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1408112	0.91[CHB][hapmap];0.85[JPT][hapmap]
rs1408113	0.91[CHB][hapmap];0.85[JPT][hapmap]
rs1408114	0.91[CHB][hapmap];0.85[JPT][hapmap]
rs1535763	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1535764	0.91[CHB][hapmap];0.85[JPT][hapmap]
rs1886129	0.91[CHB][hapmap]
rs1928699	0.87[CHB][hapmap];0.85[JPT][hapmap]
rs2418262	0.91[CHB][hapmap]
rs2418263	0.95[CHB][hapmap]
rs3748183	0.87[CHB][hapmap]
rs4497041	0.91[CHB][hapmap]
rs4641141	0.87[CHB][hapmap];0.84[JPT][hapmap]
rs4978561	0.91[CHB][hapmap];0.89[JPT][hapmap]
rs4978562	0.86[CHB][hapmap];0.89[JPT][hapmap]
rs4979310	0.96[CEU][hapmap];0.96[CHB][hapmap];0.90[JPT][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4979311	0.96[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4979316	0.87[CHB][hapmap]
rs4979317	0.91[CHB][hapmap];0.84[JPT][hapmap]
rs4979318	0.91[CHB][hapmap];0.84[JPT][hapmap]
rs4979319	0.85[CHB][hapmap];0.83[JPT][hapmap]
rs4979320	0.86[CHB][hapmap];0.89[JPT][hapmap]
rs4979321	0.86[CHB][hapmap]
rs4979322	0.87[CHB][hapmap]
rs4979323	0.82[CHB][hapmap]
rs4979324	0.82[CHB][hapmap]
rs4979326	0.86[CHB][hapmap];0.94[JPT][hapmap]
rs4979327	0.86[CHB][hapmap];0.94[JPT][hapmap]
rs6478050	0.91[CHB][hapmap]
rs7020561	0.87[CHB][hapmap]
rs7023499	0.87[CHB][hapmap]
rs7026668	0.82[CHB][hapmap]
rs7031814	0.94[CHB][hapmap];0.82[JPT][hapmap]
rs7032729	0.95[CHB][hapmap];0.89[JPT][hapmap]
rs7034528	0.91[CHB][hapmap];0.85[JPT][hapmap]
rs7036001	0.83[ASN][1000 genomes]
rs7036201	0.89[CHB][hapmap]
rs7036206	0.83[ASN][1000 genomes]
rs7041487	0.82[CHB][hapmap]
rs7041524	0.86[CHB][hapmap];0.89[JPT][hapmap]
rs7042021	0.82[CHB][hapmap]
rs7850217	0.87[CHB][hapmap]
rs7858120	0.86[CHB][hapmap];0.89[JPT][hapmap]
rs7863348	0.95[CHB][hapmap]
rs814701	0.91[CHB][hapmap];0.84[JPT][hapmap]
rs860082	0.84[CEU][hapmap];0.91[CHB][hapmap];0.84[JPT][hapmap]
rs9332459	0.91[CHB][hapmap];0.84[JPT][hapmap]
rs942286	0.91[CHB][hapmap];0.84[JPT][hapmap]
rs942287	0.91[CHB][hapmap];0.84[JPT][hapmap]
rs9695257	0.96[CHB][hapmap];0.90[JPT][hapmap];0.84[ASN][1000 genomes]
rs9696305	0.91[CHB][hapmap];0.85[JPT][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv430093	chr9:116330446-117325446	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	165 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:116717200-116754600	Weak transcription	Duodenum Smooth Muscle	Duodenum
2	chr9:116720400-116754200	Weak transcription	Monocytes-CD14+_RO01746	blood
3	chr9:116720800-116750600	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr9:116721200-116750800	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr9:116721200-116756400	Weak transcription	NHEK	skin
6	chr9:116721400-116751200	Weak transcription	Stomach Smooth Muscle	stomach
7	chr9:116728200-116754600	Weak transcription	Thymus	Thymus
8	chr9:116729000-116739800	Weak transcription	Spleen	Spleen
9	chr9:116730000-116743200	Weak transcription	Liver	Liver
10	chr9:116731800-116755600	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr9:116732000-116750600	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr9:116732000-116750600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr9:116732000-116750600	Weak transcription	HMEC	breast
14	chr9:116732000-116753000	Weak transcription	Esophagus	oesophagus
15	chr9:116732200-116743600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr9:116732200-116750000	Weak transcription	HUES6 Cell Line	embryonic stem cell
17	chr9:116732200-116750800	Weak transcription	Adipose Nuclei	Adipose
18	chr9:116732200-116753800	Weak transcription	Fetal Brain Female	brain
19	chr9:116732200-116754200	Weak transcription	Primary hematopoietic stem cells	blood
20	chr9:116732200-116768800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
21	chr9:116732200-116773400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
22	chr9:116732400-116743200	Weak transcription	HUES48 Cell Line	embryonic stem cell
23	chr9:116732400-116745800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr9:116732400-116750400	Weak transcription	Brain Germinal Matrix	brain
25	chr9:116732600-116762600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
26	chr9:116733000-116768600	Weak transcription	Fetal Kidney	kidney
27	chr9:116733400-116743000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr9:116733400-116748400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
29	chr9:116733400-116800200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
30	chr9:116733600-116750200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
31	chr9:116734000-116741000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr9:116734000-116746400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr9:116734200-116741400	Weak transcription	HUVEC	blood vessel
34	chr9:116734200-116750200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
35	chr9:116734200-116750400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr9:116734200-116750600	Weak transcription	HUES64 Cell Line	embryonic stem cell
37	chr9:116734400-116746400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr9:116734400-116746600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr9:116735000-116743200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
40	chr9:116735000-116750600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr9:116735800-116754200	Weak transcription	Right Ventricle	heart
42	chr9:116736000-116746000	Weak transcription	Fetal Lung	lung
43	chr9:116736400-116783000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
44	chr9:116736600-116739400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
45	chr9:116736600-116741000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr9:116736600-116741600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr9:116736600-116741800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
48	chr9:116736600-116754000	Weak transcription	Duodenum Mucosa	Duodenum
49	chr9:116736800-116740600	Weak transcription	NHLF	lung
50	chr9:116736800-116741000	Weak transcription	NH-A	brain

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