Variant report

Variant	rs1427282
Chromosome Location	chr15:58914326-58914327
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs11638244	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[YRI][hapmap];0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11854073	0.81[GIH][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs12439457	0.81[AFR][1000 genomes]
rs12594872	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12899638	0.92[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12900643	0.88[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs12912699	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1427281	0.85[GIH][hapmap];0.80[MEX][hapmap]
rs1469343	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AFR][1000 genomes];0.81[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs1648532	0.86[YRI][hapmap]
rs2555356	0.94[YRI][hapmap];0.81[AFR][1000 genomes]
rs2657125	1.00[YRI][hapmap]
rs28864995	0.80[CEU][hapmap];0.85[GIH][hapmap];1.00[LWK][hapmap];0.84[MEX][hapmap];0.98[MKK][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs347115	1.00[LWK][hapmap];0.98[MKK][hapmap];0.95[YRI][hapmap]
rs347117	0.81[GIH][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs383902	0.81[GIH][hapmap];1.00[LWK][hapmap];0.98[MKK][hapmap];0.95[YRI][hapmap]
rs387812	1.00[CHB][hapmap];0.90[CHD][hapmap];0.82[GIH][hapmap];1.00[LWK][hapmap];0.98[MKK][hapmap];0.95[YRI][hapmap]
rs395601	1.00[CHB][hapmap]
rs411007	1.00[CHB][hapmap]
rs4275799	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs442495	1.00[YRI][hapmap]
rs474875	1.00[LWK][hapmap];0.98[MKK][hapmap];0.95[YRI][hapmap]
rs4775083	0.89[ASN][1000 genomes]
rs4775086	0.82[MKK][hapmap]
rs4775087	0.81[GIH][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs514049	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs605928	0.81[GIH][hapmap];0.80[MKK][hapmap]
rs610877	0.81[GIH][hapmap];1.00[LWK][hapmap];0.98[MKK][hapmap];0.95[YRI][hapmap]
rs6494026	0.85[ASN][1000 genomes]
rs6494029	1.00[ASW][hapmap];0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[LWK][hapmap];0.96[MEX][hapmap];1.00[MKK][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs653765	0.81[GIH][hapmap]
rs682619	0.86[CHB][hapmap]
rs714696	0.80[CEU][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs7161889	0.81[GIH][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs7163162	0.81[AFR][1000 genomes]
rs7166356	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7168776	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs7171098	0.85[ASN][1000 genomes]
rs8035373	0.80[AFR][1000 genomes];0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs8043406	0.91[ASW][hapmap];0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.82[MKK][hapmap];0.81[TSI][hapmap];0.86[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs972801	0.80[CEU][hapmap];0.83[GIH][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.80[AMR][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	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	nsv1551	chr15:58891639-58936580	Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
4	nsv904269	chr15:58906145-58992591	Enhancers Strong transcription ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv569602	chr15:58914326-58964437	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:58880600-58920600	Weak transcription	Skeletal Muscle Male	skeletal muscle
2	chr15:58888400-58920000	Weak transcription	Rectal Smooth Muscle	rectum
3	chr15:58889600-58919800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr15:58889800-58918800	Weak transcription	Osteobl	bone
5	chr15:58889800-58921000	Weak transcription	Ovary	ovary
6	chr15:58891400-58959600	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr15:58899200-58920200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr15:58901400-58918800	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr15:58903400-58918600	Weak transcription	HUVEC	blood vessel
10	chr15:58905000-58920800	Weak transcription	Left Ventricle	heart
11	chr15:58905000-58983200	Weak transcription	Esophagus	oesophagus
12	chr15:58905400-58919000	Weak transcription	NHEK	skin
13	chr15:58905400-58919600	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr15:58905400-58971800	Weak transcription	Spleen	Spleen
15	chr15:58905600-58919800	Weak transcription	Stomach Mucosa	stomach
16	chr15:58905600-58976400	Weak transcription	Gastric	stomach
17	chr15:58906400-58915200	Weak transcription	HSMMtube	muscle
18	chr15:58906400-58920000	Weak transcription	Colonic Mucosa	Colon
19	chr15:58906400-58923000	Weak transcription	Pancreas	Pancrea
20	chr15:58906400-58976400	Weak transcription	Small Intestine	intestine
21	chr15:58907000-58918800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr15:58907200-58914800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
23	chr15:58907200-58914800	Strong transcription	Monocytes-CD14+_RO01746	blood
24	chr15:58907200-58915000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
25	chr15:58907200-58918800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
26	chr15:58907200-58918800	Weak transcription	Skeletal Muscle Female	skeletal muscle
27	chr15:58907200-58919200	Weak transcription	HepG2	liver
28	chr15:58907200-58919200	Weak transcription	NHLF	lung
29	chr15:58907200-58919400	Weak transcription	Brain Cingulate Gyrus	brain
30	chr15:58907200-58919400	Weak transcription	Colon Smooth Muscle	Colon
31	chr15:58907200-58920000	Weak transcription	Brain Inferior Temporal Lobe	brain
32	chr15:58907200-58920600	Weak transcription	Stomach Smooth Muscle	stomach
33	chr15:58907200-58920800	Weak transcription	NH-A	brain
34	chr15:58907400-58916200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
35	chr15:58907400-58920800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr15:58907800-58952000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr15:58908000-58917800	Weak transcription	Fetal Muscle Trunk	muscle
38	chr15:58908000-58923000	Weak transcription	Sigmoid Colon	Sigmoid Colon
39	chr15:58908400-58918200	Weak transcription	Rectal Mucosa Donor 29	rectum
40	chr15:58908600-58918800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
41	chr15:58908600-58920000	Weak transcription	Duodenum Smooth Muscle	Duodenum
42	chr15:58909000-58918600	Weak transcription	Cortex derived primary cultured neurospheres	brain
43	chr15:58909000-58920800	Weak transcription	Hela-S3	cervix
44	chr15:58910400-58923200	Weak transcription	Lung	lung
45	chr15:58910400-58934000	Weak transcription	Psoas Muscle	Psoas
46	chr15:58910600-58917600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr15:58910600-58918000	Weak transcription	NHDF-Ad	bronchial
48	chr15:58910800-58915400	Weak transcription	Right Ventricle	heart
49	chr15:58910800-58918000	Weak transcription	Brain Germinal Matrix	brain
50	chr15:58910800-58926200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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