Variant report

Variant	rs28412567
Chromosome Location	chr15:59102213-59102214
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs11071397	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12437952	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12439231	0.81[AMR][1000 genomes]
rs12439632	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12591310	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12595057	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12901817	0.82[ASN][1000 genomes]
rs12915713	0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs12917083	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1426652	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1551445	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1678977	0.82[ASN][1000 genomes]
rs2013098	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2620360	0.82[ASN][1000 genomes]
rs28394222	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28470809	0.81[AMR][1000 genomes]
rs28470867	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28510910	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28536555	0.81[AMR][1000 genomes]
rs28549775	0.80[ASN][1000 genomes]
rs28701980	0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs28733370	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28793354	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28800895	0.96[ASN][1000 genomes]
rs28812884	0.82[ASN][1000 genomes]
rs28876251	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28889637	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34362744	0.82[ASN][1000 genomes]
rs347112	0.82[ASN][1000 genomes]
rs500057	0.82[ASN][1000 genomes]
rs501165	0.82[ASN][1000 genomes]
rs556256	0.82[ASN][1000 genomes]
rs574683	0.81[ASN][1000 genomes]
rs597112	0.82[ASN][1000 genomes]
rs601795	0.82[ASN][1000 genomes]
rs62002455	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62002456	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs654857	0.82[ASN][1000 genomes]
rs654870	0.82[ASN][1000 genomes]
rs684505	0.82[ASN][1000 genomes]
rs688343	0.82[ASN][1000 genomes]
rs7165019	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7168825	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7169205	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7169796	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7171482	0.89[EUR][1000 genomes]
rs8025383	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs8029301	0.84[AMR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	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
3	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
4	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
5	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:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:59064600-59102800	Weak transcription	Lung	lung
2	chr15:59064600-59102800	Weak transcription	Pancreas	Pancrea
3	chr15:59064600-59103200	Weak transcription	Esophagus	oesophagus
4	chr15:59064600-59145600	Weak transcription	Gastric	stomach
5	chr15:59065200-59117800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr15:59065800-59102800	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr15:59065800-59103200	Weak transcription	NH-A	brain
8	chr15:59065800-59142800	Weak transcription	Aorta	Aorta
9	chr15:59066000-59102400	Weak transcription	HSMM	muscle
10	chr15:59066600-59102400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr15:59067000-59102400	Weak transcription	HUES48 Cell Line	embryonic stem cell
12	chr15:59067000-59102800	Weak transcription	Stomach Smooth Muscle	stomach
13	chr15:59067000-59102800	Weak transcription	NHDF-Ad	bronchial
14	chr15:59067000-59157800	Weak transcription	Hela-S3	cervix
15	chr15:59067200-59103200	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr15:59067400-59102600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
17	chr15:59067400-59102800	Weak transcription	Brain Angular Gyrus	brain
18	chr15:59067400-59111400	Weak transcription	Muscle Satellite Cultured Cells	--
19	chr15:59067800-59105000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
20	chr15:59069400-59103600	Weak transcription	Brain Germinal Matrix	brain
21	chr15:59069600-59106000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
22	chr15:59069600-59119000	Weak transcription	Fetal Brain Male	brain
23	chr15:59069800-59102600	Weak transcription	HUVEC	blood vessel
24	chr15:59069800-59121400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
25	chr15:59072000-59105600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
26	chr15:59075000-59102800	Weak transcription	Brain Hippocampus Middle	brain
27	chr15:59075000-59139800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
28	chr15:59075800-59102800	Weak transcription	Brain Anterior Caudate	brain
29	chr15:59077800-59103000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr15:59077800-59122000	Weak transcription	Brain Substantia Nigra	brain
31	chr15:59077800-59153600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
32	chr15:59078200-59102800	Weak transcription	Ovary	ovary
33	chr15:59079000-59102600	Weak transcription	HSMMtube	muscle
34	chr15:59083000-59102800	Weak transcription	Dnd41	blood
35	chr15:59083800-59102600	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr15:59084800-59102800	Weak transcription	Thymus	Thymus
37	chr15:59085000-59102400	Weak transcription	Liver	Liver
38	chr15:59085200-59102600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr15:59086200-59125800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr15:59086400-59125800	Weak transcription	Right Ventricle	heart
41	chr15:59086600-59102800	Weak transcription	Fetal Kidney	kidney
42	chr15:59087200-59104600	Weak transcription	HMEC	breast
43	chr15:59088400-59102800	Weak transcription	Primary T helper cells PMA-I stimulated	--
44	chr15:59088400-59103000	Weak transcription	Spleen	Spleen
45	chr15:59088400-59119200	Weak transcription	Colonic Mucosa	Colon
46	chr15:59088600-59102400	Weak transcription	Colon Smooth Muscle	Colon
47	chr15:59088600-59105400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
48	chr15:59088800-59102400	Weak transcription	Skeletal Muscle Female	skeletal muscle
49	chr15:59088800-59102800	Weak transcription	Placenta Amnion	Placenta Amnion
50	chr15:59090200-59156600	Weak transcription	Small Intestine	intestine

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