Variant report

Variant	rs28470867
Chromosome Location	chr15:59084633-59084634
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs11071397	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12437952	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12439231	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs12439632	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12591310	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12595057	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12900343	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs12913383	0.82[EUR][1000 genomes]
rs12915713	0.95[ASN][1000 genomes]
rs12917083	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1426652	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1551445	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2013098	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2414608	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs28394222	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28412567	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28470809	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs28510910	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28536555	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs28701980	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28733370	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28793354	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28800895	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28876251	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28889637	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34880782	0.81[ASN][1000 genomes]
rs62002455	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62002456	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7165019	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7168825	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7169205	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7169796	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7171482	0.83[EUR][1000 genomes]
rs8025383	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8029301	0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1051058	chr15:58519922-59092530	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv542401	chr15:58519922-59092530	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	esv34110	chr15:58949991-59381634	Weak transcription Bivalent Enhancer Strong transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers 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	87 gene(s)	inside rSNPs	diseases
4	esv1843037	chr15:59005922-59115159	Enhancers Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
5	esv1826703	chr15:59005922-59213678	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats 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	44 gene(s)	inside rSNPs	diseases
6	esv1798487	chr15:59027139-59213678	Strong transcription Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
7	nsv428638	chr15:59032300-59126567	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:108 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:59064600-59085000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr15:59064600-59102800	Weak transcription	Lung	lung
3	chr15:59064600-59102800	Weak transcription	Pancreas	Pancrea
4	chr15:59064600-59103200	Weak transcription	Esophagus	oesophagus
5	chr15:59064600-59145600	Weak transcription	Gastric	stomach
6	chr15:59064800-59095400	Weak transcription	Fetal Muscle Trunk	muscle
7	chr15:59065200-59117800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr15:59065800-59094600	Weak transcription	Primary hematopoietic stem cells	blood
9	chr15:59065800-59095000	Weak transcription	Fetal Thymus	thymus
10	chr15:59065800-59102800	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr15:59065800-59103200	Weak transcription	NH-A	brain
12	chr15:59065800-59142800	Weak transcription	Aorta	Aorta
13	chr15:59066000-59085200	Weak transcription	Placenta Amnion	Placenta Amnion
14	chr15:59066000-59095000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
15	chr15:59066000-59102400	Weak transcription	HSMM	muscle
16	chr15:59066200-59095000	Weak transcription	Osteobl	bone
17	chr15:59066200-59095600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr15:59066400-59085200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr15:59066400-59091000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr15:59066400-59095000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr15:59066400-59095000	Weak transcription	Fetal Intestine Large	intestine
22	chr15:59066600-59102400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
23	chr15:59067000-59094600	Weak transcription	HUES64 Cell Line	embryonic stem cell
24	chr15:59067000-59094800	Weak transcription	Duodenum Mucosa	Duodenum
25	chr15:59067000-59102400	Weak transcription	HUES48 Cell Line	embryonic stem cell
26	chr15:59067000-59102800	Weak transcription	Stomach Smooth Muscle	stomach
27	chr15:59067000-59102800	Weak transcription	NHDF-Ad	bronchial
28	chr15:59067000-59157800	Weak transcription	Hela-S3	cervix
29	chr15:59067200-59094800	Weak transcription	Rectal Mucosa Donor 29	rectum
30	chr15:59067200-59095000	Weak transcription	Fetal Lung	lung
31	chr15:59067200-59103200	Weak transcription	Rectal Mucosa Donor 31	rectum
32	chr15:59067400-59085400	Weak transcription	NHEK	skin
33	chr15:59067400-59102600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
34	chr15:59067400-59102800	Weak transcription	Brain Angular Gyrus	brain
35	chr15:59067400-59111400	Weak transcription	Muscle Satellite Cultured Cells	--
36	chr15:59067800-59094800	Weak transcription	Monocytes-CD14+_RO01746	blood
37	chr15:59067800-59105000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
38	chr15:59068000-59086000	Weak transcription	Fetal Kidney	kidney
39	chr15:59068600-59085800	Weak transcription	HepG2	liver
40	chr15:59068600-59088000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
41	chr15:59068600-59090000	Weak transcription	Small Intestine	intestine
42	chr15:59068600-59094800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
43	chr15:59069400-59103600	Weak transcription	Brain Germinal Matrix	brain
44	chr15:59069600-59106000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
45	chr15:59069600-59119000	Weak transcription	Fetal Brain Male	brain
46	chr15:59069800-59092800	Weak transcription	Primary B cells from peripheral blood	blood
47	chr15:59069800-59095400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
48	chr15:59069800-59102600	Weak transcription	HUVEC	blood vessel
49	chr15:59069800-59121400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
50	chr15:59071800-59088000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood

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