Variant report

Variant	rs62533770
Chromosome Location	chr9:6931726-6931727
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	chr9:6921809..6924418-chr9:6928929..6932002,3	MCF-7	breast:

Extended variants
information (count: 86 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs10975907	0.81[EUR][1000 genomes]
rs11788152	0.81[AFR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11788187	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11788687	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11788849	0.81[AFR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11789124	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11789248	0.81[AFR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11789250	0.81[AFR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11792447	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11794598	0.83[EUR][1000 genomes]
rs11794707	0.81[AFR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11794732	0.81[AFR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17511187	0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs17595667	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17595843	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17595877	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17595898	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs35490381	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs55686117	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs55790433	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs56036039	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs56069635	0.82[EUR][1000 genomes]
rs56185621	0.81[AFR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs56279813	0.81[AFR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs56357252	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs56722011	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs57005961	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs58143962	0.81[AFR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs58213169	0.81[AFR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs58307562	0.81[AFR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs58361204	0.81[AFR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs58378352	0.81[AFR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs58977474	0.81[AFR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs59636651	0.81[AFR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs59999598	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs60173310	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs61204407	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62533762	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62533769	0.81[AFR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62533772	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62533773	0.81[AFR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62533774	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62533787	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62533788	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62533789	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62533790	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62533791	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62533792	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62533794	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62533818	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62533819	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62533820	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62533821	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62533822	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62533823	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62533824	0.82[EUR][1000 genomes]
rs62533825	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62533827	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62533828	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62533829	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62533830	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62533831	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62533832	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62533833	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62533834	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs67642242	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs67866005	0.82[EUR][1000 genomes]
rs68190370	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs72701484	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs72701487	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73410616	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv870402	chr9:6565246-7016784	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	72 gene(s)	inside rSNPs	diseases
2	nsv1033539	chr9:6566610-7022554	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	72 gene(s)	inside rSNPs	diseases
3	nsv466111	chr9:6567841-7017391	Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	72 gene(s)	inside rSNPs	diseases
4	nsv613208	chr9:6567841-7017391	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	72 gene(s)	inside rSNPs	diseases
5	nsv1024831	chr9:6573752-7018641	Enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	70 gene(s)	inside rSNPs	diseases
6	nsv892166	chr9:6602821-7222495	Strong transcription Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
7	nsv892181	chr9:6680477-7070962	Enhancers Strong transcription Active TSS Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	70 gene(s)	inside rSNPs	diseases
8	nsv613252	chr9:6715730-7022554	Strong transcription Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
9	nsv1023906	chr9:6731786-7372132	Weak transcription ZNF genes & repeats Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
10	nsv1023461	chr9:6774993-7022554	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
11	nsv831500	chr9:6847952-6992535	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
12	nsv831501	chr9:6868099-7058526	Weak transcription Enhancers Genic enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
13	nsv892184	chr9:6906384-6985602	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
14	nsv892185	chr9:6929053-7070962	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
15	esv3380391	chr9:6929852-6931750	Weak transcription Enhancers Strong transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:85 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:6890000-6987200	Weak transcription	Aorta	Aorta
2	chr9:6893800-6981600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr9:6896200-6959000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr9:6897600-6932200	Weak transcription	Small Intestine	intestine
5	chr9:6900600-6943000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
6	chr9:6901600-6944200	Weak transcription	Duodenum Mucosa	Duodenum
7	chr9:6903000-6938600	Weak transcription	Primary monocytes fromperipheralblood	blood
8	chr9:6906400-6933200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr9:6906600-6938200	Weak transcription	Adipose Nuclei	Adipose
10	chr9:6908800-6942600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr9:6912400-6932200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr9:6912400-6932200	Weak transcription	Stomach Smooth Muscle	stomach
13	chr9:6912400-6932200	Weak transcription	Spleen	Spleen
14	chr9:6912400-6978400	Weak transcription	Esophagus	oesophagus
15	chr9:6916000-6932200	Weak transcription	HUES64 Cell Line	embryonic stem cell
16	chr9:6921400-6934000	Weak transcription	Primary hematopoietic stem cells	blood
17	chr9:6921600-6939200	Weak transcription	Fetal Lung	lung
18	chr9:6921600-6957600	Weak transcription	Thymus	Thymus
19	chr9:6921800-6960400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
20	chr9:6922000-6933600	Weak transcription	Rectal Mucosa Donor 31	rectum
21	chr9:6922000-6941600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
22	chr9:6922200-6959000	Weak transcription	Monocytes-CD14+_RO01746	blood
23	chr9:6922600-6944800	Weak transcription	Primary T helper cells PMA-I stimulated	--
24	chr9:6922600-6981000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
25	chr9:6922800-6932000	Weak transcription	Lung	lung
26	chr9:6924600-6957400	Weak transcription	Fetal Thymus	thymus
27	chr9:6926000-6932000	Weak transcription	Brain Cingulate Gyrus	brain
28	chr9:6926200-6933200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
29	chr9:6926800-6938600	Weak transcription	Brain Angular Gyrus	brain
30	chr9:6927600-6932000	Weak transcription	Brain Inferior Temporal Lobe	brain
31	chr9:6928200-6932000	Weak transcription	Primary B cells from peripheral blood	blood
32	chr9:6928400-6938400	Weak transcription	Brain Hippocampus Middle	brain
33	chr9:6928600-6941400	Weak transcription	Primary T cells from cord blood	blood
34	chr9:6929000-6932000	Weak transcription	Gastric	stomach
35	chr9:6929200-6933600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr9:6929400-6932400	Weak transcription	Colon Smooth Muscle	Colon
37	chr9:6929600-6932200	Weak transcription	Stomach Mucosa	stomach
38	chr9:6929600-6932600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr9:6929600-6932600	Weak transcription	Duodenum Smooth Muscle	Duodenum
40	chr9:6929600-6933200	Enhancers	Osteobl	bone
41	chr9:6929600-6933800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr9:6929800-6944800	Weak transcription	Sigmoid Colon	Sigmoid Colon
43	chr9:6930000-6932200	Enhancers	K562	blood
44	chr9:6930000-6932600	Enhancers	Muscle Satellite Cultured Cells	--
45	chr9:6930000-6933600	Enhancers	NHDF-Ad	bronchial
46	chr9:6930000-6939600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
47	chr9:6930200-6932000	Weak transcription	GM12878-XiMat	blood
48	chr9:6930600-6932000	Enhancers	HSMM	muscle
49	chr9:6930600-6932600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
50	chr9:6930800-6932400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin

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