Variant report

Variant	rs1554203
Chromosome Location	chr15:58429547-58429548
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10518964	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12050800	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12437895	1.00[CEU][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12440410	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12440784	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12440934	1.00[CEU][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap]
rs16939816	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17571313	1.00[ASW][hapmap];1.00[CEU][hapmap];0.86[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1874156	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2642624	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2704203	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34034101	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34246303	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3959686	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4511467	1.00[CEU][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4774289	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs57139208	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs60179196	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs60401526	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs60802802	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7180019	1.00[CEU][hapmap];0.87[YRI][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73424166	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs73426124	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8037263	0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1038667	chr15:57933076-58481870	Flanking Active TSS Enhancers Genic enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv542400	chr15:57933076-58481870	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv904263	chr15:58340072-58437346	Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv1047246	chr15:58375607-58707158	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
5	nsv457172	chr15:58417895-58457507	Enhancers Weak transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv569597	chr15:58417895-58457507	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:58427200-58431000	Enhancers	HMEC	breast
2	chr15:58427400-58429800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr15:58427400-58430800	Enhancers	NHEK	skin
4	chr15:58427400-58431200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr15:58427600-58429800	Enhancers	Muscle Satellite Cultured Cells	--
6	chr15:58427600-58430800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr15:58428400-58430600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr15:58428600-58429800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr15:58428800-58431600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr15:58428800-58433600	Weak transcription	K562	blood
11	chr15:58429000-58429600	Enhancers	Monocytes-CD14+_RO01746	blood
12	chr15:58429000-58430400	Enhancers	Primary monocytes fromperipheralblood	blood
13	chr15:58429200-58430000	Enhancers	Liver	Liver
14	chr15:58429200-58430600	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
15	chr15:58429400-58429600	Bivalent Enhancer	Primary B cells from cord blood	blood
16	chr15:58429400-58430600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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