Variant report

Variant	rs28405881
Chromosome Location	chr15:72049038-72049039
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10048041	1.00[AMR][1000 genomes]
rs10518975	1.00[AMR][1000 genomes]
rs13329355	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13379549	1.00[AMR][1000 genomes]
rs16956213	1.00[AMR][1000 genomes]
rs16956251	1.00[AMR][1000 genomes]
rs16956307	1.00[AMR][1000 genomes]
rs16956355	1.00[AMR][1000 genomes]
rs28478122	1.00[AMR][1000 genomes]
rs28542248	1.00[AMR][1000 genomes]
rs28556992	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28589295	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56820256	1.00[AMR][1000 genomes]
rs59572935	1.00[AMR][1000 genomes]
rs61026619	1.00[AMR][1000 genomes]
rs7176558	1.00[AMR][1000 genomes]
rs73432496	1.00[AMR][1000 genomes]
rs73432498	1.00[AMR][1000 genomes]
rs73434307	1.00[AMR][1000 genomes]
rs73434311	1.00[AMR][1000 genomes]
rs73434331	1.00[AMR][1000 genomes]
rs73434332	1.00[AMR][1000 genomes]
rs73434358	1.00[AMR][1000 genomes]
rs73434377	1.00[AMR][1000 genomes]
rs73434390	1.00[AMR][1000 genomes]
rs73434401	1.00[AMR][1000 genomes]
rs748471	1.00[AMR][1000 genomes]
rs748473	1.00[AMR][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	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	nsv904335	chr15:72018469-72064719	Enhancers Strong transcription ZNF genes & repeats Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:72021600-72071400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr15:72030400-72075800	Weak transcription	Right Ventricle	heart
3	chr15:72036400-72071400	Weak transcription	Fetal Lung	lung
4	chr15:72039400-72050200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr15:72040600-72054200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
6	chr15:72041000-72050200	Weak transcription	Lung	lung
7	chr15:72041400-72050200	Weak transcription	Colonic Mucosa	Colon
8	chr15:72041400-72054200	Weak transcription	Gastric	stomach
9	chr15:72042000-72056800	Weak transcription	Stomach Smooth Muscle	stomach
10	chr15:72043200-72050200	Weak transcription	Esophagus	oesophagus
11	chr15:72043400-72049400	Weak transcription	Fetal Muscle Trunk	muscle
12	chr15:72045200-72050200	Weak transcription	Liver	Liver
13	chr15:72045400-72050200	Weak transcription	Duodenum Mucosa	Duodenum
14	chr15:72045600-72050600	Weak transcription	Fetal Kidney	kidney
15	chr15:72045600-72073000	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr15:72045800-72049400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr15:72046000-72050200	Weak transcription	Small Intestine	intestine
18	chr15:72046000-72052000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
19	chr15:72046000-72054400	Weak transcription	Fetal Heart	heart
20	chr15:72046200-72050200	Weak transcription	Pancreas	Pancrea
21	chr15:72046200-72052000	Weak transcription	NHLF	lung
22	chr15:72046200-72054000	Weak transcription	Osteobl	bone
23	chr15:72046200-72057200	Weak transcription	Aorta	Aorta
24	chr15:72046400-72052000	Weak transcription	Muscle Satellite Cultured Cells	--
25	chr15:72046400-72052200	Weak transcription	HMEC	breast
26	chr15:72046400-72052400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr15:72046400-72052600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr15:72046400-72054000	Weak transcription	Placenta Amnion	Placenta Amnion
29	chr15:72046600-72049200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr15:72047400-72052400	Enhancers	Fetal Intestine Large	intestine
31	chr15:72047800-72051400	Strong transcription	A549	lung
32	chr15:72047800-72051800	Enhancers	Fetal Intestine Small	intestine
33	chr15:72048000-72050400	Weak transcription	Rectal Mucosa Donor 29	rectum
34	chr15:72048000-72051600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr15:72048200-72051000	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr15:72048200-72053200	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr15:72048400-72050200	Weak transcription	Sigmoid Colon	Sigmoid Colon
38	chr15:72048400-72051000	Strong transcription	NHEK	skin
39	chr15:72048600-72050200	Weak transcription	Left Ventricle	heart
40	chr15:72048600-72050200	Weak transcription	Rectal Mucosa Donor 31	rectum
41	chr15:72048600-72054000	Weak transcription	Stomach Mucosa	stomach
42	chr15:72048800-72051200	Enhancers	Placenta	Placenta
43	chr15:72049000-72049200	Enhancers	HepG2	liver
44	chr15:72049000-72050600	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
45	chr15:72049000-72050600	Strong transcription	Fetal Stomach	stomach
46	chr15:72049000-72051200	Enhancers	Fetal Muscle Leg	muscle

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