Variant report

Variant	rs13228087
Chromosome Location	chr7:38909204-38909205
allele	G/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:

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];0.85[CHD][hapmap];0.90[ASN][1000 genomes]
rs1019065	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10229531	0.81[CEU][hapmap];0.82[CHB][hapmap];0.82[YRI][hapmap];0.91[AFR][1000 genomes];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];0.88[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	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10272658	0.92[ASN][1000 genomes]
rs10274968	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.82[YRI][hapmap];0.81[AFR][1000 genomes];0.91[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];0.88[CHD][hapmap];0.96[ASN][1000 genomes]
rs1155507	0.85[CHB][hapmap];0.89[MEX][hapmap]
rs11772408	0.96[ASN][1000 genomes]
rs11980197	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11980627	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]
rs11983390	0.92[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	0.94[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]
rs1473138	0.90[ASN][1000 genomes]
rs1473139	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs17618395	0.82[CHB][hapmap];0.89[MEX][hapmap];0.88[ASN][1000 genomes]
rs17619021	0.96[ASN][1000 genomes]
rs17680408	0.84[ASN][1000 genomes]
rs17680879	0.96[ASN][1000 genomes]
rs2008199	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2009277	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2067683	0.81[CEU][hapmap];0.82[CHB][hapmap];0.88[CHD][hapmap];0.96[ASN][1000 genomes]
rs2072247	0.86[ASN][1000 genomes]
rs2072248	1.00[CHB][hapmap];0.85[CHD][hapmap];0.90[ASN][1000 genomes]
rs2074853	0.96[CEU][hapmap];0.85[CHB][hapmap];0.95[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	0.91[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs2392604	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];1.00[AFR][1000 genomes];0.99[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	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2392607	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28369620	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28460817	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28552512	0.86[ASN][1000 genomes]
rs2893568	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3735346	0.82[CHB][hapmap];0.88[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[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];0.88[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];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.98[TSI][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3801127	0.96[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.98[TSI][hapmap];0.88[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];0.85[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];0.85[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];0.88[CHD][hapmap];0.96[ASN][1000 genomes]
rs6945239	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6946636	1.00[CHB][hapmap];0.85[CHD][hapmap];0.83[GIH][hapmap];0.89[MEX][hapmap];0.90[ASN][1000 genomes]
rs6948026	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6955677	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];0.89[GIH][hapmap];0.83[MEX][hapmap];0.87[MKK][hapmap];0.95[TSI][hapmap];0.92[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];0.83[YRI][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6974795	0.92[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	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7782927	0.82[CHB][hapmap];0.96[ASN][1000 genomes]
rs7788383	0.91[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs7793692	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7798033	1.00[CHB][hapmap];0.85[CHD][hapmap];0.85[ASN][1000 genomes]
rs8180877	0.92[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];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs929422	0.90[ASN][1000 genomes]
rs9639805	1.00[CHB][hapmap];0.85[CHD][hapmap];0.88[ASN][1000 genomes]
rs9655397	0.82[CHB][hapmap];0.86[ASN][1000 genomes]
rs976353	0.85[CHB][hapmap]
rs982392	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[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:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:38871400-38920000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr7:38873200-38919200	Weak transcription	Pancreas	Pancrea
3	chr7:38879800-38938000	Weak transcription	Right Ventricle	heart
4	chr7:38881200-38919200	Weak transcription	Psoas Muscle	Psoas
5	chr7:38886200-38947800	Weak transcription	Stomach Smooth Muscle	stomach
6	chr7:38889400-38909600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr7:38889400-38948200	Weak transcription	Gastric	stomach
8	chr7:38889600-38932600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr7:38893800-38925600	Weak transcription	Thymus	Thymus
10	chr7:38898400-38920000	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr7:38898600-38914200	Weak transcription	NHLF	lung
12	chr7:38898600-38928800	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr7:38898800-38912200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
14	chr7:38899200-38924200	Weak transcription	Fetal Kidney	kidney
15	chr7:38901800-38920000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
16	chr7:38902200-38910800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
17	chr7:38902600-38910200	Weak transcription	Brain Germinal Matrix	brain
18	chr7:38903600-38917400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr7:38903800-38909800	Weak transcription	HUES6 Cell Line	embryonic stem cell
20	chr7:38903800-38910000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr7:38903800-38913600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
22	chr7:38903800-38939600	Weak transcription	A549	lung
23	chr7:38903800-38947000	Weak transcription	Small Intestine	intestine
24	chr7:38904000-38910200	Weak transcription	HUVEC	blood vessel
25	chr7:38904400-38913200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr7:38904600-38913400	Weak transcription	NHEK	skin
27	chr7:38904800-38909800	Strong transcription	Primary B cells from peripheral blood	blood
28	chr7:38904800-38910200	Strong transcription	Primary T cells from cord blood	blood
29	chr7:38905000-38925600	Weak transcription	Fetal Intestine Small	intestine
30	chr7:38905600-38912200	Weak transcription	Pancreatic Islets	Pancreatic Islet
31	chr7:38905600-38937800	Weak transcription	Colonic Mucosa	Colon
32	chr7:38906000-38920000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
33	chr7:38906000-38947800	Weak transcription	H1 Cell Line	embryonic stem cell
34	chr7:38907800-38919800	Weak transcription	Brain Hippocampus Middle	brain
35	chr7:38907800-38922400	Weak transcription	HepG2	liver
36	chr7:38908000-38910400	Weak transcription	K562	blood
37	chr7:38908000-38913200	Weak transcription	HMEC	breast
38	chr7:38908000-38920000	Weak transcription	Fetal Brain Male	brain
39	chr7:38908000-38941000	Weak transcription	Colon Smooth Muscle	Colon
40	chr7:38908200-38909600	Weak transcription	Aorta	Aorta
41	chr7:38908200-38909800	Weak transcription	HSMMtube	muscle
42	chr7:38908200-38910000	Weak transcription	Fetal Lung	lung
43	chr7:38908200-38910000	Weak transcription	Osteobl	bone
44	chr7:38908200-38911600	Weak transcription	Spleen	Spleen
45	chr7:38908200-38916600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
46	chr7:38908200-38917600	Weak transcription	Primary hematopoietic stem cells	blood
47	chr7:38908200-38917600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
48	chr7:38908200-38918400	Weak transcription	Skeletal Muscle Male	skeletal muscle
49	chr7:38908200-38918400	Weak transcription	Skeletal Muscle Female	skeletal muscle
50	chr7:38908200-38918600	Weak transcription	H9 Cell Line	embryonic stem cell

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