Variant report

Variant	rs28690018
Chromosome Location	chr15:72153438-72153439
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 111 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:102)

rs_ID	r²[population]
rs11072334	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12101366	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12101856	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12102227	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12372924	1.00[AMR][1000 genomes]
rs13329116	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13329270	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28367264	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28373432	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28379334	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28397143	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28397237	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28397783	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28403882	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28408067	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28409017	1.00[AFR][1000 genomes]
rs28409864	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28412105	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28413902	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28416103	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28421817	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28428645	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28429589	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28430988	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28445807	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28449356	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28450008	1.00[AMR][1000 genomes]
rs28450424	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28451732	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28455090	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28465335	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28470660	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28482979	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28483934	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28485920	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28501562	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28502516	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28504990	1.00[AMR][1000 genomes]
rs28514321	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28515972	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28529658	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28535954	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28536592	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28542557	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28548453	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28552371	1.00[AMR][1000 genomes]
rs28569017	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28570214	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28573725	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28578220	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28583168	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28589979	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28599944	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28605814	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28618096	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28625307	1.00[AFR][1000 genomes]
rs28628140	1.00[AMR][1000 genomes]
rs28628792	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28630701	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28634283	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28636054	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28639590	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28642081	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28643497	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28654176	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28654861	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28657431	1.00[AMR][1000 genomes]
rs28660217	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28662800	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28670261	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28675378	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28676909	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28681225	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28701136	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28705696	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28707151	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28707565	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28709937	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28715777	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28725348	1.00[AMR][1000 genomes]
rs28725466	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28727443	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28741048	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28778881	1.00[AFR][1000 genomes]
rs28786091	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28791192	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28801155	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28808678	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28809863	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28812537	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28817677	1.00[AFR][1000 genomes]
rs28824293	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28830268	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28833566	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28853032	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28872877	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28879707	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9888653	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9920204	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9920223	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9920476	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9920987	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv904334	chr15:71737376-72177659	Strong transcription Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1036938	chr15:71948106-72272855	Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Enhancers Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
3	esv3331306	chr15:72049818-72427559	Strong transcription ZNF genes & repeats Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
4	esv3433206	chr15:72049838-72427529	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
5	nsv569906	chr15:72126034-72218036	Strong transcription Weak transcription Active TSS Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
6	nsv516871	chr15:72126034-72325595	Weak transcription Strong transcription Active TSS ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
7	nsv1042740	chr15:72128799-72482239	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
8	nsv542426	chr15:72128799-72482239	Flanking Active TSS Strong transcription Weak transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
9	nsv904336	chr15:72145937-72329906	Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:102 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:72114600-72190600	Weak transcription	Pancreas	Pancrea
2	chr15:72119200-72171800	Weak transcription	Psoas Muscle	Psoas
3	chr15:72122200-72189400	Weak transcription	Right Ventricle	heart
4	chr15:72122400-72195000	Weak transcription	NHEK	skin
5	chr15:72122600-72171800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
6	chr15:72122600-72185200	Weak transcription	Esophagus	oesophagus
7	chr15:72122600-72195800	Weak transcription	Gastric	stomach
8	chr15:72131800-72192800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
9	chr15:72137000-72156400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
10	chr15:72138200-72172400	Weak transcription	HUVEC	blood vessel
11	chr15:72140200-72171800	Weak transcription	HMEC	breast
12	chr15:72141400-72174200	Weak transcription	Fetal Brain Male	brain
13	chr15:72142600-72154000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
14	chr15:72142600-72154600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
15	chr15:72142600-72166400	Weak transcription	GM12878-XiMat	blood
16	chr15:72142600-72170200	Weak transcription	Placenta Amnion	Placenta Amnion
17	chr15:72142600-72171800	Weak transcription	NH-A	brain
18	chr15:72142600-72183400	Weak transcription	Brain Angular Gyrus	brain
19	chr15:72142600-72189600	Weak transcription	NHLF	lung
20	chr15:72142600-72199200	Weak transcription	Hela-S3	cervix
21	chr15:72142800-72170000	Weak transcription	HUES64 Cell Line	embryonic stem cell
22	chr15:72142800-72171800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr15:72142800-72172000	Weak transcription	Dnd41	blood
24	chr15:72142800-72176000	Weak transcription	HUES48 Cell Line	embryonic stem cell
25	chr15:72142800-72184800	Weak transcription	A549	lung
26	chr15:72142800-72190200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr15:72143000-72163400	Weak transcription	Fetal Intestine Small	intestine
28	chr15:72143000-72172200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
29	chr15:72143000-72190600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr15:72143000-72190600	Weak transcription	Colonic Mucosa	Colon
31	chr15:72143800-72160200	Weak transcription	Aorta	Aorta
32	chr15:72143800-72172000	Weak transcription	Brain Germinal Matrix	brain
33	chr15:72144000-72166400	Weak transcription	Ovary	ovary
34	chr15:72144200-72170400	Weak transcription	NHDF-Ad	bronchial
35	chr15:72144600-72170200	Weak transcription	Colon Smooth Muscle	Colon
36	chr15:72144600-72223400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
37	chr15:72145200-72170000	Weak transcription	Fetal Brain Female	brain
38	chr15:72145400-72163400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr15:72145400-72163400	Weak transcription	Fetal Stomach	stomach
40	chr15:72145400-72190600	Weak transcription	Spleen	Spleen
41	chr15:72145600-72170600	Weak transcription	Primary T cells fromperipheralblood	blood
42	chr15:72145600-72182800	Weak transcription	Brain Cingulate Gyrus	brain
43	chr15:72145600-72184800	Weak transcription	Lung	lung
44	chr15:72145800-72170400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
45	chr15:72146000-72170000	Weak transcription	Brain Inferior Temporal Lobe	brain
46	chr15:72146200-72160200	Weak transcription	Sigmoid Colon	Sigmoid Colon
47	chr15:72146200-72171800	Weak transcription	Brain Hippocampus Middle	brain
48	chr15:72146200-72171800	Weak transcription	Left Ventricle	heart
49	chr15:72146200-72172000	Weak transcription	Brain Anterior Caudate	brain
50	chr15:72146400-72169000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland

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