Variant report

Variant	rs11980627
Chromosome Location	chr7:38907533-38907534
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	chr7:38906776..38909465-chr7:38940924..38943623,2	K562	blood:
2	chr7:38906917..38908871-chr7:38912756..38915741,2	MCF-7	breast:

Extended variants
information (count: 129 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:128)

rs_ID	r²[population]
rs10085898	1.00[CHB][hapmap];0.90[CHD][hapmap];0.90[ASN][1000 genomes]
rs1019065	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10229531	0.81[CEU][hapmap];0.82[CHB][hapmap];0.96[ASN][1000 genomes]
rs10244302	0.86[ASN][1000 genomes]
rs10244901	0.96[ASN][1000 genomes]
rs10245322	0.81[CEU][hapmap];0.82[CHB][hapmap];0.94[CHD][hapmap];0.96[ASN][1000 genomes]
rs10245333	0.96[ASN][1000 genomes]
rs10249090	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs10250120	0.81[CEU][hapmap];0.82[CHB][hapmap];0.96[ASN][1000 genomes]
rs10251632	0.94[ASN][1000 genomes]
rs10254617	0.85[CHB][hapmap]
rs10266910	0.96[ASN][1000 genomes]
rs10269756	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10272658	0.92[ASN][1000 genomes]
rs10274968	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10279181	0.81[CEU][hapmap];0.96[ASN][1000 genomes]
rs10279990	0.81[CEU][hapmap];0.82[CHB][hapmap];0.96[ASN][1000 genomes]
rs10280140	0.96[ASN][1000 genomes]
rs10281823	0.81[CEU][hapmap];0.82[CHB][hapmap];0.96[ASN][1000 genomes]
rs10951576	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs10951578	0.81[CEU][hapmap];0.82[CHB][hapmap];0.94[CHD][hapmap];0.96[ASN][1000 genomes]
rs1155507	0.85[CHB][hapmap];0.89[MEX][hapmap]
rs11772408	0.96[ASN][1000 genomes]
rs11980197	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11983390	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12533017	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs12533808	0.90[ASN][1000 genomes]
rs12535711	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12672018	0.81[CEU][hapmap];0.82[CHB][hapmap];0.96[ASN][1000 genomes]
rs13228087	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1473138	0.90[ASN][1000 genomes]
rs1473139	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs17618395	0.82[CHB][hapmap];0.83[CHD][hapmap];0.89[MEX][hapmap];0.88[ASN][1000 genomes]
rs17619021	0.96[ASN][1000 genomes]
rs17680408	0.84[CHD][hapmap];0.84[ASN][1000 genomes]
rs17680879	0.96[ASN][1000 genomes]
rs2008199	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2009277	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2067683	0.81[CEU][hapmap];0.82[CHB][hapmap];0.94[CHD][hapmap];0.96[ASN][1000 genomes]
rs2072247	0.86[ASN][1000 genomes]
rs2072248	1.00[CHB][hapmap];0.90[CHD][hapmap];0.90[ASN][1000 genomes]
rs2074853	0.96[CEU][hapmap];0.85[CHB][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2159018	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs2189853	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs2286080	0.85[CHB][hapmap]
rs2392601	0.85[CHB][hapmap];0.90[ASN][1000 genomes]
rs2392602	0.90[ASN][1000 genomes]
rs2392603	0.96[ASN][1000 genomes]
rs2392604	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2392605	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2392606	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2392607	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28369620	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28460817	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28552512	0.86[ASN][1000 genomes]
rs2893568	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3735346	0.82[CHB][hapmap];0.94[CHD][hapmap];0.96[ASN][1000 genomes]
rs3779122	0.86[ASN][1000 genomes]
rs3779124	0.85[ASN][1000 genomes]
rs3779125	0.82[CHB][hapmap];0.84[CHD][hapmap];0.84[ASN][1000 genomes]
rs3801111	0.81[CEU][hapmap];0.82[CHB][hapmap];0.96[ASN][1000 genomes]
rs3801113	0.81[CEU][hapmap];0.82[CHB][hapmap];0.96[ASN][1000 genomes]
rs3801114	0.96[ASN][1000 genomes]
rs3801115	0.81[CEU][hapmap];0.82[CHB][hapmap];0.96[ASN][1000 genomes]
rs3801116	0.81[CEU][hapmap];0.82[CHB][hapmap];0.94[CHD][hapmap];0.96[ASN][1000 genomes]
rs3801119	0.81[CEU][hapmap];0.82[CHB][hapmap];0.96[ASN][1000 genomes]
rs3801124	0.81[CEU][hapmap];0.96[ASN][1000 genomes]
rs3801126	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.98[TSI][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3801127	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.98[TSI][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3801128	0.86[ASN][1000 genomes]
rs3801132	0.90[ASN][1000 genomes]
rs3801134	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs4623319	0.96[ASN][1000 genomes]
rs4720303	0.85[CHB][hapmap];0.89[MEX][hapmap]
rs4720306	0.87[ASN][1000 genomes]
rs4723789	0.85[CHB][hapmap]
rs4723791	0.85[CHB][hapmap];0.88[ASN][1000 genomes]
rs4723792	1.00[CHB][hapmap];0.88[ASN][1000 genomes]
rs4723795	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs4723796	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs4723800	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs56980069	0.96[ASN][1000 genomes]
rs59626436	0.96[ASN][1000 genomes]
rs59995998	0.96[ASN][1000 genomes]
rs62443565	0.96[ASN][1000 genomes]
rs62443566	0.96[ASN][1000 genomes]
rs62443573	0.96[ASN][1000 genomes]
rs62443575	0.86[ASN][1000 genomes]
rs62444126	0.82[ASN][1000 genomes]
rs62444137	0.86[ASN][1000 genomes]
rs62444140	0.86[ASN][1000 genomes]
rs6415270	1.00[CHB][hapmap];0.90[CHD][hapmap];0.88[ASN][1000 genomes]
rs6462864	0.85[CHB][hapmap]
rs6462865	0.85[CHB][hapmap];0.89[MEX][hapmap]
rs6462868	1.00[CHB][hapmap];0.90[CHD][hapmap];0.90[ASN][1000 genomes]
rs6462869	0.90[ASN][1000 genomes]
rs6462870	0.90[ASN][1000 genomes]
rs6943746	0.81[CEU][hapmap];0.82[CHB][hapmap];0.94[CHD][hapmap];0.96[ASN][1000 genomes]
rs6945239	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6946636	1.00[CHB][hapmap];0.90[CHD][hapmap];0.83[GIH][hapmap];0.89[MEX][hapmap];0.90[ASN][1000 genomes]
rs6948026	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6955677	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.91[GIH][hapmap];0.84[MEX][hapmap];0.95[TSI][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6957565	0.85[CHB][hapmap]
rs6959858	0.86[ASN][1000 genomes]
rs6960585	0.96[ASN][1000 genomes]
rs6963364	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs6966738	0.96[ASN][1000 genomes]
rs6968196	0.90[ASN][1000 genomes]
rs6969435	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs6973415	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6974795	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73123612	0.86[ASN][1000 genomes]
rs73127433	0.96[ASN][1000 genomes]
rs73131153	0.86[ASN][1000 genomes]
rs7776996	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7782927	0.82[CHB][hapmap];0.96[ASN][1000 genomes]
rs7788383	0.96[ASN][1000 genomes]
rs7793692	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7798033	1.00[CHB][hapmap];0.90[CHD][hapmap];0.85[ASN][1000 genomes]
rs8180877	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs917320	0.81[CEU][hapmap];0.82[CHB][hapmap];0.96[ASN][1000 genomes]
rs917321	0.81[CEU][hapmap];0.82[CHB][hapmap];0.96[ASN][1000 genomes]
rs917322	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs929422	0.90[ASN][1000 genomes]
rs9639805	1.00[CHB][hapmap];0.90[CHD][hapmap];0.88[ASN][1000 genomes]
rs9655397	0.82[CHB][hapmap];0.84[CHD][hapmap];0.86[ASN][1000 genomes]
rs976353	0.85[CHB][hapmap]
rs982392	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]

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	nsv887966	chr7:38835035-38933942	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:38858800-38907600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr7:38871400-38920000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr7:38873000-38907600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr7:38873200-38919200	Weak transcription	Pancreas	Pancrea
5	chr7:38879800-38938000	Weak transcription	Right Ventricle	heart
6	chr7:38881200-38907600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr7:38881200-38919200	Weak transcription	Psoas Muscle	Psoas
8	chr7:38883400-38907600	Weak transcription	Esophagus	oesophagus
9	chr7:38886200-38947800	Weak transcription	Stomach Smooth Muscle	stomach
10	chr7:38886400-38907600	Weak transcription	Rectal Smooth Muscle	rectum
11	chr7:38889400-38909600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr7:38889400-38948200	Weak transcription	Gastric	stomach
13	chr7:38889600-38932600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr7:38893800-38925600	Weak transcription	Thymus	Thymus
15	chr7:38896000-38907600	Weak transcription	Spleen	Spleen
16	chr7:38897600-38909000	Strong transcription	Monocytes-CD14+_RO01746	blood
17	chr7:38898000-38907600	Weak transcription	HSMM	muscle
18	chr7:38898200-38909200	Weak transcription	NH-A	brain
19	chr7:38898400-38920000	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr7:38898600-38907600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr7:38898600-38907600	Weak transcription	NHDF-Ad	bronchial
22	chr7:38898600-38914200	Weak transcription	NHLF	lung
23	chr7:38898600-38928800	Weak transcription	Cortex derived primary cultured neurospheres	brain
24	chr7:38898800-38912200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
25	chr7:38899200-38924200	Weak transcription	Fetal Kidney	kidney
26	chr7:38899400-38907600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr7:38901600-38907600	Weak transcription	Fetal Thymus	thymus
28	chr7:38901800-38907600	Weak transcription	Placenta	Placenta
29	chr7:38901800-38920000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
30	chr7:38902200-38910800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
31	chr7:38902600-38910200	Weak transcription	Brain Germinal Matrix	brain
32	chr7:38903600-38917400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr7:38903800-38909800	Weak transcription	HUES6 Cell Line	embryonic stem cell
34	chr7:38903800-38910000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
35	chr7:38903800-38913600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
36	chr7:38903800-38939600	Weak transcription	A549	lung
37	chr7:38903800-38947000	Weak transcription	Small Intestine	intestine
38	chr7:38904000-38910200	Weak transcription	HUVEC	blood vessel
39	chr7:38904400-38908800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
40	chr7:38904400-38908800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr7:38904400-38913200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr7:38904600-38908400	Strong transcription	Dnd41	blood
43	chr7:38904600-38913400	Weak transcription	NHEK	skin
44	chr7:38904800-38908800	Strong transcription	Primary B cells from cord blood	blood
45	chr7:38904800-38908800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
46	chr7:38904800-38909000	Strong transcription	Primary T helper cells PMA-I stimulated	--
47	chr7:38904800-38909200	Strong transcription	Primary monocytes fromperipheralblood	blood
48	chr7:38904800-38909800	Strong transcription	Primary B cells from peripheral blood	blood
49	chr7:38904800-38910200	Strong transcription	Primary T cells from cord blood	blood
50	chr7:38905000-38908800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links