Variant report

Variant	rs10820906
Chromosome Location	chr9:94587274-94587275
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:94579358..94582251-chr9:94586460..94588565,3	MCF-7	breast:
2	chr9:94580430..94582585-chr9:94584118..94590050,5	K562	blood:
3	chr9:94586540..94588666-chr9:94592596..94596432,3	MCF-7	breast:
4	chr9:94580430..94582759-chr9:94584118..94590023,5	K562	blood:

Extended variants
information (count: 83 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs10820907	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10820910	0.82[CEU][hapmap]
rs10992123	0.91[CEU][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10992124	0.90[CEU][hapmap];0.82[EUR][1000 genomes]
rs10992128	0.95[CEU][hapmap];0.85[JPT][hapmap];0.85[EUR][1000 genomes]
rs10992129	0.90[CEU][hapmap];0.84[JPT][hapmap];0.85[EUR][1000 genomes]
rs10992130	0.95[CEU][hapmap];0.81[EUR][1000 genomes]
rs10992131	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10992132	0.90[CEU][hapmap];0.80[EUR][1000 genomes]
rs10992134	0.91[CEU][hapmap];0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs10992135	0.95[CEU][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10992136	0.87[CEU][hapmap]
rs10992137	0.90[CEU][hapmap];0.80[EUR][1000 genomes]
rs10992139	0.91[CEU][hapmap]
rs10992142	0.91[CEU][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10992143	0.91[CEU][hapmap]
rs10992144	0.91[CEU][hapmap]
rs10992145	0.87[CEU][hapmap]
rs11789730	0.81[CEU][hapmap]
rs11790144	0.86[CEU][hapmap]
rs11791450	0.95[CEU][hapmap]
rs12376231	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12376539	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12378938	0.94[CEU][hapmap];0.80[EUR][1000 genomes]
rs12551140	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12552292	0.89[CEU][hapmap];0.84[EUR][1000 genomes]
rs12552858	0.90[CEU][hapmap]
rs12684524	0.86[CEU][hapmap]
rs1528363	0.86[CEU][hapmap]
rs1528364	0.86[CEU][hapmap]
rs1534531	0.83[EUR][1000 genomes]
rs1534533	0.82[CEU][hapmap]
rs16907887	0.95[CEU][hapmap];0.83[EUR][1000 genomes]
rs1881385	0.91[CEU][hapmap]
rs1881387	0.90[CEU][hapmap]
rs1881392	0.90[CEU][hapmap];0.80[EUR][1000 genomes]
rs1997286	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2312732	0.95[CEU][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2312734	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2312735	0.91[CEU][hapmap]
rs2841691	0.83[EUR][1000 genomes]
rs4322068	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4639579	0.95[CEU][hapmap];0.84[JPT][hapmap];0.85[EUR][1000 genomes]
rs4743857	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4744107	0.91[CEU][hapmap]
rs4744109	0.82[CEU][hapmap]
rs4744111	0.82[CEU][hapmap]
rs55663665	0.81[EUR][1000 genomes]
rs56088447	0.80[EUR][1000 genomes]
rs62564595	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62564597	0.81[EUR][1000 genomes]
rs62564598	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62564599	0.80[EUR][1000 genomes]
rs6479374	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6479375	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6479376	0.95[CEU][hapmap];0.83[EUR][1000 genomes]
rs7019210	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7029950	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs7030661	0.87[CEU][hapmap]
rs7031562	0.95[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7033819	0.91[CEU][hapmap]
rs7039406	0.91[CEU][hapmap];0.80[EUR][1000 genomes]
rs7045226	0.86[CEU][hapmap]
rs7045333	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7048756	0.95[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72746206	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7850118	0.87[CEU][hapmap]
rs7855417	0.95[CEU][hapmap];0.85[EUR][1000 genomes]
rs7856144	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7859331	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7863061	0.95[CEU][hapmap];0.85[JPT][hapmap];0.84[EUR][1000 genomes]
rs7867707	0.95[CEU][hapmap];0.84[JPT][hapmap];0.85[EUR][1000 genomes]
rs7870049	0.81[CEU][hapmap]
rs7870902	0.82[EUR][1000 genomes]
rs7874148	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1045332	chr9:94352661-94656016	Active TSS Bivalent Enhancer Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
2	nsv1047426	chr9:94363211-94758114	Weak transcription Bivalent Enhancer Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
3	nsv531631	chr9:94373847-94633213	Weak transcription Enhancers Bivalent Enhancer Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
4	nsv1036176	chr9:94500213-94639367	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv540171	chr9:94500213-94639367	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	nsv949008	chr9:94500776-95182133	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
7	nsv518372	chr9:94558126-94605908	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv6614	chr9:94571349-94610085	ZNF genes & repeats Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:94572400-94587400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr9:94581800-94587600	Weak transcription	Spleen	Spleen
3	chr9:94581800-94588000	Weak transcription	Fetal Kidney	kidney
4	chr9:94584000-94595800	Weak transcription	Gastric	stomach
5	chr9:94584200-94587400	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr9:94585600-94588600	Genic enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr9:94586200-94587800	Enhancers	Colonic Mucosa	Colon
8	chr9:94586200-94588000	Enhancers	Fetal Muscle Leg	muscle
9	chr9:94586200-94588200	Enhancers	Ovary	ovary
10	chr9:94586200-94588400	Enhancers	Placenta	Placenta
11	chr9:94586200-94588600	Enhancers	Placenta Amnion	Placenta Amnion
12	chr9:94586400-94587400	Enhancers	Fetal Thymus	thymus
13	chr9:94586400-94587400	Enhancers	HSMMtube	muscle
14	chr9:94586400-94587600	Enhancers	Right Ventricle	heart
15	chr9:94586400-94587800	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr9:94586400-94588000	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr9:94586400-94588000	Enhancers	Duodenum Smooth Muscle	Duodenum
18	chr9:94586400-94588200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr9:94586400-94588200	Enhancers	Fetal Stomach	stomach
20	chr9:94586400-94588600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr9:94586400-94588600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr9:94586600-94587800	Flanking Active TSS	Stomach Smooth Muscle	stomach
23	chr9:94586600-94588000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr9:94586600-94588000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr9:94586600-94588000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr9:94586600-94588000	Enhancers	HSMM	muscle
27	chr9:94586600-94588200	Bivalent Enhancer	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr9:94586800-94588000	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr9:94586800-94588000	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr9:94586800-94588000	Enhancers	Fetal Intestine Small	intestine
31	chr9:94586800-94588000	Enhancers	Rectal Mucosa Donor 29	rectum
32	chr9:94586800-94588200	Bivalent Enhancer	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr9:94586800-94588200	Bivalent Enhancer	Osteobl	bone
34	chr9:94586800-94588400	Enhancers	NHLF	lung
35	chr9:94586800-94588600	Enhancers	HUES6 Cell Line	embryonic stem cell
36	chr9:94587000-94587600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
37	chr9:94587000-94588000	Bivalent Enhancer	Muscle Satellite Cultured Cells	--
38	chr9:94587000-94588000	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr9:94587000-94588000	Flanking Active TSS	Colon Smooth Muscle	Colon
40	chr9:94587000-94588200	Enhancers	Rectal Smooth Muscle	rectum
41	chr9:94587000-94588400	Enhancers	Fetal Lung	lung
42	chr9:94587000-94588600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr9:94587200-94587400	Flanking Active TSS	Adipose Nuclei	Adipose
44	chr9:94587200-94587400	Flanking Bivalent TSS/Enh	Fetal Muscle Trunk	muscle
45	chr9:94587200-94587600	Enhancers	Esophagus	oesophagus
46	chr9:94587200-94587800	Enhancers	Sigmoid Colon	Sigmoid Colon
47	chr9:94587200-94588000	Flanking Active TSS	NHDF-Ad	bronchial
48	chr9:94587200-94588000	Flanking Active TSS	NHEK	skin

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