Variant report

Variant	rs6532091
Chromosome Location	chr4:89877367-89877368
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	chr4:89870700..89873807-chr4:89875689..89877845,3	MCF-7	breast:

Extended variants
information (count: 101 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:92)

rs_ID	r²[population]
rs10004888	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10006121	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10009019	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10025142	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10028596	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10030965	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10033484	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10470937	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11097206	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11097208	0.91[ASN][1000 genomes]
rs11732617	0.82[ASN][1000 genomes]
rs11737016	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11737182	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11935610	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12512799	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12645240	0.91[ASN][1000 genomes]
rs13148188	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1398940	0.86[ASN][1000 genomes]
rs1458557	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16996143	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1708668	0.82[ASN][1000 genomes]
rs1708670	0.84[ASN][1000 genomes]
rs1708681	0.82[ASN][1000 genomes]
rs1795727	0.81[ASN][1000 genomes]
rs1795729	0.85[ASN][1000 genomes]
rs1795734	0.86[ASN][1000 genomes]
rs1795738	0.84[ASN][1000 genomes]
rs1849597	0.86[ASN][1000 genomes]
rs1903006	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1903007	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1921679	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1921683	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1921684	0.90[ASN][1000 genomes]
rs1921685	0.82[ASN][1000 genomes]
rs1961979	0.90[ASN][1000 genomes]
rs2085601	0.97[ASN][1000 genomes]
rs2178583	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2178584	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2178585	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2609275	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2609277	0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2704571	0.82[ASN][1000 genomes]
rs2704573	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2704574	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2704576	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2704577	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2704596	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28540701	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28600923	0.81[ASN][1000 genomes]
rs2869969	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2869971	0.90[ASN][1000 genomes]
rs2869972	0.90[ASN][1000 genomes]
rs2869973	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28712360	0.91[ASN][1000 genomes]
rs2904261	0.90[ASN][1000 genomes]
rs34749134	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34869341	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35232147	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35441198	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4437212	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4450885	0.89[ASN][1000 genomes]
rs4507326	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4693977	0.81[ASN][1000 genomes]
rs4693981	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs67308941	0.84[ASN][1000 genomes]
rs6815703	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6819725	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6827857	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6834787	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6835019	0.81[ASN][1000 genomes]
rs6844655	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6852373	0.86[ASN][1000 genomes]
rs6852947	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7654714	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7656238	0.90[ASN][1000 genomes]
rs7659904	0.91[ASN][1000 genomes]
rs7660314	0.91[ASN][1000 genomes]
rs7660385	0.90[ASN][1000 genomes]
rs7680864	0.89[ASN][1000 genomes]
rs7686954	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7692455	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7697075	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7697900	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7697921	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9307053	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9307054	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9307055	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9307060	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9307061	0.91[ASN][1000 genomes]
rs9991237	0.91[ASN][1000 genomes]
rs9991800	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9995465	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv470051	chr4:89644931-90643144	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv1009354	chr4:89725914-89985155	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv998651	chr4:89800245-89933445	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
4	nsv537175	chr4:89800245-89933445	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
5	nsv879532	chr4:89811195-89917135	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
6	nsv879533	chr4:89832532-89917135	ZNF genes & repeats Active TSS Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
7	nsv1007025	chr4:89837734-90098046	Enhancers Flanking Active TSS Strong transcription Active TSS Weak transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
8	nsv537176	chr4:89837734-90098046	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
9	esv1829430	chr4:89853598-89908308	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:89825600-89878400	Weak transcription	Primary hematopoietic stem cells	blood
2	chr4:89850200-89878800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr4:89851400-89883600	Weak transcription	Fetal Intestine Large	intestine
4	chr4:89852400-89885000	Weak transcription	Fetal Lung	lung
5	chr4:89852600-89877800	Weak transcription	Fetal Muscle Leg	muscle
6	chr4:89852600-89879200	Weak transcription	Fetal Stomach	stomach
7	chr4:89852600-89879400	Weak transcription	Fetal Muscle Trunk	muscle
8	chr4:89857800-89879400	Weak transcription	Lung	lung
9	chr4:89859600-89877800	Weak transcription	Fetal Intestine Small	intestine
10	chr4:89864400-89881400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
11	chr4:89865600-89878400	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr4:89871000-89879400	Weak transcription	Ovary	ovary
13	chr4:89871000-89888600	Weak transcription	Small Intestine	intestine
14	chr4:89872400-89879400	Weak transcription	Aorta	Aorta
15	chr4:89873000-89886000	Enhancers	Primary monocytes fromperipheralblood	blood
16	chr4:89873400-89879400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr4:89874000-89878200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr4:89874000-89878800	Weak transcription	NHDF-Ad	bronchial
19	chr4:89874800-89878600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr4:89875000-89879000	Weak transcription	Primary B cells from cord blood	blood
21	chr4:89875200-89878800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr4:89875200-89882000	Weak transcription	Duodenum Smooth Muscle	Duodenum
23	chr4:89875600-89878000	Enhancers	Monocytes-CD14+_RO01746	blood
24	chr4:89875600-89878600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr4:89875600-89878800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
26	chr4:89875600-89880200	Enhancers	Placenta	Placenta
27	chr4:89876800-89877400	Enhancers	Primary neutrophils fromperipheralblood	blood
28	chr4:89877000-89879000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
29	chr4:89877000-89889000	Weak transcription	Gastric	stomach
30	chr4:89877200-89877600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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