Variant report

Variant	rs3095821
Chromosome Location	chr15:57575916-57575917
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 127 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:123)

rs_ID	r²[population]
rs1037956	0.92[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1037958	0.92[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10518894	0.89[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap]
rs10518895	0.94[CHB][hapmap];1.00[JPT][hapmap]
rs10518899	0.92[CEU][hapmap];0.96[MEX][hapmap];0.91[TSI][hapmap];0.80[EUR][1000 genomes]
rs11071309	0.88[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs11629653	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11630910	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11631084	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11632069	0.92[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs11634352	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11635440	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11636201	0.80[ASN][1000 genomes]
rs11636340	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11636348	0.80[ASN][1000 genomes]
rs11637955	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11852340	0.89[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap]
rs11853331	0.88[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.91[TSI][hapmap]
rs11855648	0.94[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap]
rs11856073	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11857507	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11857722	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11858783	0.87[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs12050751	0.88[CEU][hapmap];0.84[MEX][hapmap];0.91[TSI][hapmap]
rs12899036	0.88[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12899588	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12901671	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12902099	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12902170	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12902581	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12903115	0.81[EUR][1000 genomes]
rs12903151	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12903221	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12904189	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12904321	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12904501	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12904561	0.81[ASN][1000 genomes]
rs12904602	0.88[CEU][hapmap];0.96[MEX][hapmap];0.91[TSI][hapmap]
rs12904634	0.96[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.84[MKK][hapmap];0.95[TSI][hapmap]
rs12904933	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12906042	0.92[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12906335	0.85[ASN][1000 genomes]
rs12906566	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12908278	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12908760	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12909016	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12909696	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12910094	0.88[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap]
rs12910109	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12910832	0.80[ASN][1000 genomes]
rs12911256	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12911297	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12911518	0.81[EUR][1000 genomes]
rs12912210	0.81[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.80[ASN][1000 genomes]
rs12912353	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12912868	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12914425	0.92[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12914481	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12915489	0.94[CHB][hapmap];0.87[JPT][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12916478	0.81[EUR][1000 genomes]
rs12917093	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13313455	0.91[JPT][hapmap]
rs1462156	0.88[CEU][hapmap];0.81[EUR][1000 genomes]
rs1545728	0.92[CEU][hapmap];0.93[CHD][hapmap];0.93[GIH][hapmap];0.95[JPT][hapmap];0.91[MEX][hapmap];0.88[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16977374	0.91[MKK][hapmap];0.90[YRI][hapmap]
rs17239431	0.86[EUR][1000 genomes]
rs17239508	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1814585	0.92[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1867638	0.86[YRI][hapmap]
rs1867641	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.98[TSI][hapmap];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2169466	0.89[CHB][hapmap];1.00[JPT][hapmap]
rs2278685	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2290938	0.92[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];0.98[TSI][hapmap];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2414491	0.88[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.91[TSI][hapmap];0.80[EUR][1000 genomes]
rs2414492	0.96[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2431023	0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2441925	0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2591062	0.90[YRI][hapmap]
rs2591066	0.90[YRI][hapmap]
rs2593216	0.89[YRI][hapmap]
rs2593235	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2593237	0.84[ASN][1000 genomes]
rs2593238	0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2615220	1.00[YRI][hapmap]
rs2615228	0.90[YRI][hapmap]
rs2615231	0.91[JPT][hapmap]
rs2703600	0.90[YRI][hapmap]
rs2703619	0.89[YRI][hapmap]
rs2733309	0.90[YRI][hapmap]
rs2733320	0.90[YRI][hapmap]
rs2733330	0.90[YRI][hapmap]
rs2733332	0.84[CHB][hapmap];0.86[JPT][hapmap];0.82[TSI][hapmap]
rs2951899	0.86[JPT][hapmap];0.84[TSI][hapmap]
rs3794613	0.96[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.88[MKK][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4238321	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4238322	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4303429	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4353440	1.00[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4369592	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4447362	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4774250	0.88[CEU][hapmap];0.89[CHB][hapmap];0.86[JPT][hapmap]
rs4774251	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4774252	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4774910	0.85[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap]
rs4774913	0.88[CEU][hapmap];0.94[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.91[TSI][hapmap];0.82[ASN][1000 genomes]
rs4774918	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4774919	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs5014892	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61996955	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61996957	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62022237	0.80[ASN][1000 genomes]
rs6493901	0.84[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap]
rs7161965	0.92[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs7175436	0.91[JPT][hapmap];0.84[TSI][hapmap]
rs7182038	0.82[YRI][hapmap]
rs745652	0.88[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.80[ASN][1000 genomes]
rs8024901	0.91[MKK][hapmap];0.90[YRI][hapmap]
rs8037901	0.81[CEU][hapmap];0.94[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.84[TSI][hapmap]
rs898901	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs935326	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.84[MKK][hapmap];0.98[TSI][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs960946	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs967514	0.91[JPT][hapmap];0.84[TSI][hapmap]
rs978274	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv904251	chr15:57241970-57575916	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv1045611	chr15:57350965-58070807	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
3	nsv833021	chr15:57495413-57751366	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
4	nsv526342	chr15:57565859-57597280	Strong transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57520400-57576000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
2	chr15:57522800-57585000	Strong transcription	Fetal Thymus	thymus
3	chr15:57537800-57598200	Weak transcription	Colonic Mucosa	Colon
4	chr15:57546000-57580600	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr15:57548200-57578000	Weak transcription	Fetal Heart	heart
6	chr15:57552200-57588600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr15:57552400-57578600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr15:57553200-57585000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr15:57556200-57580600	Weak transcription	Stomach Mucosa	stomach
10	chr15:57557000-57584600	Weak transcription	Colon Smooth Muscle	Colon
11	chr15:57557600-57578000	Weak transcription	Pancreas	Pancrea
12	chr15:57557600-57588600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr15:57562600-57578000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr15:57562600-57584200	Strong transcription	Fetal Muscle Trunk	muscle
15	chr15:57562600-57584600	Strong transcription	Fetal Muscle Leg	muscle
16	chr15:57564000-57582400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr15:57564000-57583600	Strong transcription	Dnd41	blood
18	chr15:57564800-57584600	Strong transcription	Cortex derived primary cultured neurospheres	brain
19	chr15:57565000-57576400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr15:57565000-57583400	Strong transcription	Thymus	Thymus
21	chr15:57565600-57584600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr15:57565800-57578000	Weak transcription	Right Ventricle	heart
23	chr15:57566000-57577800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
24	chr15:57566000-57577800	Weak transcription	Brain Substantia Nigra	brain
25	chr15:57566000-57579000	Weak transcription	Brain Germinal Matrix	brain
26	chr15:57566000-57584400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
27	chr15:57566000-57591600	Weak transcription	Esophagus	oesophagus
28	chr15:57566200-57578400	Weak transcription	Spleen	Spleen
29	chr15:57566400-57577800	Weak transcription	Small Intestine	intestine
30	chr15:57566400-57578000	Weak transcription	Ovary	ovary
31	chr15:57567000-57579000	Weak transcription	Rectal Smooth Muscle	rectum
32	chr15:57567400-57577600	Weak transcription	A549	lung
33	chr15:57567800-57578600	Weak transcription	NHEK	skin
34	chr15:57568000-57576000	Weak transcription	H1 Cell Line	embryonic stem cell
35	chr15:57568000-57578200	Weak transcription	Brain Angular Gyrus	brain
36	chr15:57568000-57578400	Weak transcription	H9 Cell Line	embryonic stem cell
37	chr15:57568000-57582600	Weak transcription	Aorta	Aorta
38	chr15:57568000-57588400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
39	chr15:57568000-57590600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
40	chr15:57568200-57577800	Weak transcription	Gastric	stomach
41	chr15:57568200-57577800	Weak transcription	HMEC	breast
42	chr15:57568200-57578000	Weak transcription	Lung	lung
43	chr15:57568200-57578400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
44	chr15:57568200-57591600	Weak transcription	Psoas Muscle	Psoas
45	chr15:57568600-57583800	Strong transcription	Fetal Intestine Large	intestine
46	chr15:57569400-57576400	Weak transcription	Sigmoid Colon	Sigmoid Colon
47	chr15:57570000-57576800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
48	chr15:57570200-57577800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
49	chr15:57571200-57576600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
50	chr15:57571200-57580000	Strong transcription	Adipose Nuclei	Adipose

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