Variant report

Variant	rs7040935
Chromosome Location	chr9:6943471-6943472
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	chr9:6931770..6934269-chr9:6942265..6944921,2	MCF-7	breast:

Extended variants
information (count: 133 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:116)

rs_ID	r²[population]
rs10115920	0.82[ASN][1000 genomes]
rs10975907	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10975933	0.97[ASN][1000 genomes]
rs11788152	0.90[EUR][1000 genomes]
rs11788187	0.90[EUR][1000 genomes]
rs11788687	0.92[EUR][1000 genomes]
rs11788849	0.90[EUR][1000 genomes]
rs11789124	0.91[EUR][1000 genomes]
rs11789248	0.90[EUR][1000 genomes]
rs11789250	0.90[EUR][1000 genomes]
rs11790720	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11791950	0.86[EUR][1000 genomes]
rs11792082	0.96[EUR][1000 genomes]
rs11792447	0.87[EUR][1000 genomes]
rs11792899	0.95[EUR][1000 genomes]
rs11794598	0.87[EUR][1000 genomes]
rs11794707	0.90[EUR][1000 genomes]
rs11794732	0.90[EUR][1000 genomes]
rs11794838	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12376208	0.83[ASN][1000 genomes]
rs12683541	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12684006	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12684331	0.90[EUR][1000 genomes]
rs12684647	0.82[EUR][1000 genomes]
rs12685041	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12686116	0.92[EUR][1000 genomes]
rs12686353	0.90[EUR][1000 genomes]
rs1340517	0.92[EUR][1000 genomes]
rs17511187	0.92[EUR][1000 genomes]
rs17511250	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17511776	0.90[EUR][1000 genomes]
rs17595667	0.90[EUR][1000 genomes]
rs17595843	0.91[EUR][1000 genomes]
rs17595877	0.91[EUR][1000 genomes]
rs17595898	0.92[EUR][1000 genomes]
rs17596052	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs35490381	0.81[EUR][1000 genomes]
rs3818891	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3818892	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3818894	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3818895	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3818896	0.99[ASN][1000 genomes]
rs3818898	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3818899	0.97[EUR][1000 genomes]
rs3818900	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3818901	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4537355	0.85[EUR][1000 genomes]
rs55686117	0.91[EUR][1000 genomes]
rs55790433	0.91[EUR][1000 genomes]
rs55978538	0.94[EUR][1000 genomes]
rs56036039	0.91[EUR][1000 genomes]
rs56069635	0.87[EUR][1000 genomes]
rs56185621	0.89[EUR][1000 genomes]
rs56279813	0.91[EUR][1000 genomes]
rs56357252	0.92[EUR][1000 genomes]
rs57005961	0.92[EUR][1000 genomes]
rs58143962	0.91[EUR][1000 genomes]
rs58213169	0.90[EUR][1000 genomes]
rs58307562	0.90[EUR][1000 genomes]
rs58361204	0.90[EUR][1000 genomes]
rs58378352	0.91[EUR][1000 genomes]
rs58977474	0.90[EUR][1000 genomes]
rs59337249	0.95[EUR][1000 genomes]
rs59636651	0.90[EUR][1000 genomes]
rs59999598	0.91[EUR][1000 genomes]
rs60173310	0.90[EUR][1000 genomes]
rs60392055	0.86[EUR][1000 genomes]
rs61204407	0.84[EUR][1000 genomes]
rs61685780	0.94[EUR][1000 genomes]
rs62533762	0.90[EUR][1000 genomes]
rs62533769	0.91[EUR][1000 genomes]
rs62533773	0.90[EUR][1000 genomes]
rs62533774	0.90[EUR][1000 genomes]
rs62533787	0.92[EUR][1000 genomes]
rs62533788	0.92[EUR][1000 genomes]
rs62533789	0.91[EUR][1000 genomes]
rs62533790	0.88[EUR][1000 genomes]
rs62533791	0.92[EUR][1000 genomes]
rs62533792	0.90[EUR][1000 genomes]
rs62533794	0.91[EUR][1000 genomes]
rs62533818	0.91[EUR][1000 genomes]
rs62533819	0.91[EUR][1000 genomes]
rs62533820	0.91[EUR][1000 genomes]
rs62533821	0.92[EUR][1000 genomes]
rs62533822	0.92[EUR][1000 genomes]
rs62533823	0.92[EUR][1000 genomes]
rs62533824	0.91[EUR][1000 genomes]
rs62533825	0.92[EUR][1000 genomes]
rs62533827	0.92[EUR][1000 genomes]
rs62533828	0.92[EUR][1000 genomes]
rs62533829	0.92[EUR][1000 genomes]
rs62533830	0.92[EUR][1000 genomes]
rs62533831	0.92[EUR][1000 genomes]
rs62533832	0.92[EUR][1000 genomes]
rs62533833	0.92[EUR][1000 genomes]
rs62533834	0.92[EUR][1000 genomes]
rs62533837	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62533838	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62533839	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62533840	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6477128	0.81[ASN][1000 genomes]
rs67642242	0.91[EUR][1000 genomes]
rs67866005	0.87[EUR][1000 genomes]
rs68190370	0.92[EUR][1000 genomes]
rs7025865	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7026899	0.82[EUR][1000 genomes]
rs7031406	0.83[ASN][1000 genomes]
rs7034789	0.83[EUR][1000 genomes]
rs7037266	0.99[ASN][1000 genomes]
rs7037799	0.83[ASN][1000 genomes]
rs7046665	0.98[ASN][1000 genomes]
rs72701484	0.92[EUR][1000 genomes]
rs72701487	0.87[EUR][1000 genomes]
rs73410616	0.87[EUR][1000 genomes]
rs7850286	1.00[ASN][1000 genomes]
rs7863137	0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:17 , 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	nsv1021234	chr9:6933222-7015397	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
16	nsv870178	chr9:6941584-7060029	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
17	nsv892186	chr9:6942605-7075305	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:77 , 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	chr9:6901600-6944200	Weak transcription	Duodenum Mucosa	Duodenum
5	chr9:6912400-6978400	Weak transcription	Esophagus	oesophagus
6	chr9:6921600-6957600	Weak transcription	Thymus	Thymus
7	chr9:6921800-6960400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
8	chr9:6922200-6959000	Weak transcription	Monocytes-CD14+_RO01746	blood
9	chr9:6922600-6944800	Weak transcription	Primary T helper cells PMA-I stimulated	--
10	chr9:6922600-6981000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
11	chr9:6924600-6957400	Weak transcription	Fetal Thymus	thymus
12	chr9:6929800-6944800	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr9:6931400-6958600	Weak transcription	Primary T helper cells fromperipheralblood	blood
14	chr9:6931400-6960000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
15	chr9:6932400-6943600	Weak transcription	Primary B cells from cord blood	blood
16	chr9:6932400-6944200	Weak transcription	Skeletal Muscle Female	skeletal muscle
17	chr9:6932400-6945400	Weak transcription	Fetal Intestine Large	intestine
18	chr9:6932600-6944200	Weak transcription	Small Intestine	intestine
19	chr9:6932600-6949600	Weak transcription	Primary T cells fromperipheralblood	blood
20	chr9:6932800-6944200	Weak transcription	Psoas Muscle	Psoas
21	chr9:6932800-6944800	Weak transcription	Gastric	stomach
22	chr9:6932800-6955000	Weak transcription	Right Atrium	heart
23	chr9:6932800-6985000	Weak transcription	Spleen	Spleen
24	chr9:6933400-6944000	Weak transcription	Duodenum Smooth Muscle	Duodenum
25	chr9:6933600-6944600	Weak transcription	Pancreatic Islets	Pancreatic Islet
26	chr9:6936800-6965200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
27	chr9:6937000-6943600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
28	chr9:6938800-6960400	Weak transcription	Adipose Nuclei	Adipose
29	chr9:6939200-6943600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr9:6939200-6943600	Weak transcription	Brain Hippocampus Middle	brain
31	chr9:6939200-6943800	Weak transcription	Brain Inferior Temporal Lobe	brain
32	chr9:6939200-6943800	Weak transcription	NHEK	skin
33	chr9:6939200-6944200	Weak transcription	Brain Angular Gyrus	brain
34	chr9:6939200-6944200	Weak transcription	Brain Cingulate Gyrus	brain
35	chr9:6939200-6944200	Weak transcription	HSMMtube	muscle
36	chr9:6939200-6944400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
37	chr9:6939200-6945600	Weak transcription	Primary monocytes fromperipheralblood	blood
38	chr9:6939400-6943600	Weak transcription	Placenta	Placenta
39	chr9:6939400-6943800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr9:6939400-6943800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
41	chr9:6939400-6943800	Weak transcription	HMEC	breast
42	chr9:6939400-6944000	Weak transcription	HSMM	muscle
43	chr9:6939400-6944200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr9:6939400-6944200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
45	chr9:6939400-6944200	Weak transcription	Fetal Brain Male	brain
46	chr9:6939400-6944800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
47	chr9:6939400-6949000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
48	chr9:6939400-6955800	Weak transcription	Rectal Smooth Muscle	rectum
49	chr9:6939400-6967200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
50	chr9:6939400-6978600	Weak transcription	Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links