Variant report

Variant	rs13380406
Chromosome Location	chr15:57882733-57882734
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs1009319	1.00[ASN][1000 genomes]
rs10152310	1.00[ASN][1000 genomes]
rs10152878	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10851618	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10851619	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11071335	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11852838	1.00[ASN][1000 genomes]
rs11853270	1.00[ASN][1000 genomes]
rs11856824	1.00[ASN][1000 genomes]
rs12323998	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12324010	0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12324289	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12324526	0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12442978	0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12442987	1.00[ASN][1000 genomes]
rs12443389	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12443485	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13380418	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1346125	1.00[ASN][1000 genomes]
rs17239937	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17820515	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2172608	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28557258	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4774273	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4774274	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4774281	1.00[ASN][1000 genomes]
rs4774282	1.00[ASN][1000 genomes]
rs4774971	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4774974	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57589057	1.00[ASN][1000 genomes]
rs58017146	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58919063	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61600143	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7178159	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72743512	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72743516	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72745565	1.00[ASN][1000 genomes]
rs7359330	1.00[ASN][1000 genomes]
rs74016366	1.00[ASN][1000 genomes]
rs9796502	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	nsv1054547	chr15:57600488-57977659	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
3	nsv904255	chr15:57790436-57907574	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57877400-57883600	Enhancers	Primary B cells from peripheral blood	blood
2	chr15:57878400-57883600	Enhancers	Primary T helper cells PMA-I stimulated	--
3	chr15:57878600-57883400	Enhancers	Adipose Nuclei	Adipose
4	chr15:57878800-57883400	Enhancers	Rectal Mucosa Donor 31	rectum
5	chr15:57879600-57883600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr15:57879800-57883600	Enhancers	Stomach Mucosa	stomach
7	chr15:57880000-57883400	Weak transcription	HUVEC	blood vessel
8	chr15:57880400-57883200	Weak transcription	Spleen	Spleen
9	chr15:57880600-57883400	Enhancers	Fetal Heart	heart
10	chr15:57880800-57883000	Weak transcription	Skeletal Muscle Female	skeletal muscle
11	chr15:57880800-57883200	Weak transcription	Left Ventricle	heart
12	chr15:57881000-57883200	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr15:57881000-57883400	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr15:57881200-57883200	Enhancers	Fetal Lung	lung
15	chr15:57881200-57883200	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr15:57881600-57883000	Enhancers	Fetal Muscle Leg	muscle
17	chr15:57881600-57883400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr15:57881600-57883400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr15:57881600-57883400	Weak transcription	Brain Substantia Nigra	brain
20	chr15:57881600-57883600	Weak transcription	Muscle Satellite Cultured Cells	--
21	chr15:57881800-57883200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
22	chr15:57881800-57883400	Enhancers	Fetal Intestine Small	intestine
23	chr15:57881800-57883600	Enhancers	Right Atrium	heart
24	chr15:57881800-57883600	Enhancers	Right Ventricle	heart
25	chr15:57882000-57883200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr15:57882000-57883400	Enhancers	Duodenum Mucosa	Duodenum
27	chr15:57882000-57883400	Enhancers	Fetal Intestine Large	intestine
28	chr15:57882000-57883600	Enhancers	Placenta	Placenta
29	chr15:57882000-57883600	Enhancers	Pancreas	Pancrea
30	chr15:57882000-57883800	Enhancers	Lung	lung
31	chr15:57882200-57883000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
32	chr15:57882200-57883000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
33	chr15:57882200-57883000	Weak transcription	Hela-S3	cervix
34	chr15:57882200-57883200	Weak transcription	Esophagus	oesophagus
35	chr15:57882200-57883200	Weak transcription	NHEK	skin
36	chr15:57882200-57883400	Enhancers	Stomach Smooth Muscle	stomach
37	chr15:57882200-57883400	Weak transcription	HMEC	breast
38	chr15:57882200-57883600	Weak transcription	Psoas Muscle	Psoas
39	chr15:57882400-57882800	Weak transcription	Gastric	stomach
40	chr15:57882400-57883400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
41	chr15:57882400-57883600	Weak transcription	Brain Hippocampus Middle	brain
42	chr15:57882600-57882800	Bivalent Enhancer	Fetal Thymus	thymus
43	chr15:57882600-57883400	Weak transcription	Duodenum Smooth Muscle	Duodenum

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