Variant report

Variant	rs8027998
Chromosome Location	chr15:58997249-58997250
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs11071396	0.84[AMR][1000 genomes]
rs11852241	0.90[AMR][1000 genomes]
rs11855190	0.86[ASN][1000 genomes]
rs12437552	0.92[CEU][hapmap];0.96[GIH][hapmap];0.90[MEX][hapmap];0.95[TSI][hapmap];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17236243	0.80[AMR][1000 genomes]
rs2054096	0.86[JPT][hapmap];0.96[YRI][hapmap];0.84[ASN][1000 genomes]
rs2414606	0.91[CEU][hapmap];0.83[CHB][hapmap];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2414607	0.84[CEU][hapmap];0.96[GIH][hapmap];0.90[MEX][hapmap];0.86[TSI][hapmap];0.91[AMR][1000 genomes]
rs28391588	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.90[YRI][hapmap];0.99[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3933541	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs394845	0.96[GIH][hapmap];0.86[MEX][hapmap]
rs4238331	0.89[CHD][hapmap];0.86[JPT][hapmap];0.91[LWK][hapmap];0.96[YRI][hapmap];0.86[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs4774311	0.84[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap]
rs655348	0.89[AMR][1000 genomes]
rs681711	0.84[AMR][1000 genomes]
rs694335	0.93[GIH][hapmap];0.85[MEX][hapmap]
rs7163515	0.86[JPT][hapmap];0.90[YRI][hapmap];0.84[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs7164844	0.84[CEU][hapmap];0.95[CHB][hapmap];0.91[CHD][hapmap];0.86[JPT][hapmap];0.80[TSI][hapmap]
rs7164954	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7168275	0.90[AMR][1000 genomes]
rs7170538	0.84[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.86[JPT][hapmap];0.85[TSI][hapmap]
rs7171198	0.84[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap]
rs7173286	0.92[CEU][hapmap];0.90[AMR][1000 genomes]
rs7176436	0.93[GIH][hapmap]
rs7179724	0.84[CEU][hapmap];0.96[GIH][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7182060	0.93[GIH][hapmap]
rs7183504	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8023706	0.84[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[YRI][hapmap];0.97[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs8023946	0.80[ASN][1000 genomes]
rs8039696	0.87[ASN][1000 genomes]
rs9646204	0.80[MEX][hapmap];0.80[AMR][1000 genomes]
rs9788674	0.85[CHB][hapmap];0.85[JPT][hapmap]

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	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

No data

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:58977200-58998200	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr15:58977200-59004400	Weak transcription	Ovary	ovary
3	chr15:58977200-59007800	Weak transcription	HepG2	liver
4	chr15:58977200-59039200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr15:58982400-59005000	Weak transcription	Rectal Mucosa Donor 29	rectum
6	chr15:58982600-59008000	Weak transcription	Fetal Brain Male	brain
7	chr15:58983200-59016600	Weak transcription	Small Intestine	intestine
8	chr15:58985200-59005000	Weak transcription	HSMMtube	muscle
9	chr15:58986600-59016600	Weak transcription	Stomach Smooth Muscle	stomach
10	chr15:58987400-59012000	Weak transcription	Rectal Smooth Muscle	rectum
11	chr15:58987600-59005000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
12	chr15:58987600-59007800	Weak transcription	HUES48 Cell Line	embryonic stem cell
13	chr15:58989800-59016800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr15:58990000-58997600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr15:58990000-58998400	Weak transcription	Gastric	stomach
16	chr15:58990000-58998400	Weak transcription	Right Ventricle	heart
17	chr15:58990000-58998800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
18	chr15:58990000-59004800	Weak transcription	Pancreas	Pancrea
19	chr15:58990000-59005000	Weak transcription	Spleen	Spleen
20	chr15:58990000-59005200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
21	chr15:58990000-59023400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr15:58991600-59005200	Weak transcription	Brain Hippocampus Middle	brain
23	chr15:58991800-59005000	Weak transcription	Liver	Liver
24	chr15:58991800-59005000	Weak transcription	Fetal Kidney	kidney
25	chr15:58991800-59005000	Weak transcription	HMEC	breast
26	chr15:58991800-59012200	Weak transcription	Brain Inferior Temporal Lobe	brain
27	chr15:58992000-59002600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
28	chr15:58992000-59005000	Weak transcription	H1 Cell Line	embryonic stem cell
29	chr15:58992000-59009000	Weak transcription	Placenta	Placenta
30	chr15:58992000-59010800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr15:58992000-59015800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
32	chr15:58992000-59023000	Weak transcription	Esophagus	oesophagus
33	chr15:58992000-59023800	Weak transcription	Aorta	Aorta
34	chr15:58992200-59004400	Weak transcription	Fetal Muscle Leg	muscle
35	chr15:58992200-59008600	Weak transcription	Fetal Lung	lung
36	chr15:58992400-58997600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr15:58992400-58998200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
38	chr15:58992400-59004600	Weak transcription	Fetal Muscle Trunk	muscle
39	chr15:58992400-59005000	Weak transcription	HUES64 Cell Line	embryonic stem cell
40	chr15:58992400-59005200	Weak transcription	NHEK	skin
41	chr15:58992400-59005600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr15:58992400-59011600	Weak transcription	HUVEC	blood vessel
43	chr15:58992400-59012000	Weak transcription	Brain Anterior Caudate	brain
44	chr15:58992600-59005000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
45	chr15:58992600-59016600	Weak transcription	Duodenum Smooth Muscle	Duodenum
46	chr15:58992600-59021000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
47	chr15:58992800-59007200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
48	chr15:58992800-59008400	Weak transcription	A549	lung
49	chr15:58993200-58998200	Weak transcription	Primary T helper cells PMA-I stimulated	--
50	chr15:58993200-59005000	Weak transcription	Thymus	Thymus

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