Variant report

Variant	rs1530087
Chromosome Location	chr15:55990029-55990030
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs1014551	0.84[CHB][hapmap];0.90[JPT][hapmap]
rs10518817	1.00[CEU][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs10851589	1.00[CEU][hapmap]
rs11857453	0.81[ASN][1000 genomes]
rs11857467	0.82[ASN][1000 genomes]
rs11858195	0.89[CHB][hapmap];0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs12373006	1.00[YRI][hapmap]
rs12591246	0.80[CEU][hapmap];0.82[JPT][hapmap];0.85[AMR][1000 genomes]
rs12592192	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12594642	0.80[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1371056	0.80[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs1550330	0.90[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs16976450	0.80[CEU][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs16976466	0.90[JPT][hapmap]
rs16976472	0.83[JPT][hapmap]
rs1986012	0.83[ASN][1000 genomes]
rs2414424	0.80[CEU][hapmap];0.82[JPT][hapmap];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2414426	0.80[CEU][hapmap];0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2414427	0.80[CEU][hapmap];0.88[AMR][1000 genomes]
rs4774799	0.82[AMR][1000 genomes]
rs572531	0.89[CEU][hapmap];0.85[AMR][1000 genomes]
rs62043869	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62043871	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62043872	0.87[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6493805	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs687128	0.89[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs71110312	0.87[AMR][1000 genomes]
rs715321	0.92[AMR][1000 genomes]
rs7162071	0.81[CHB][hapmap]
rs7162879	0.82[JPT][hapmap]
rs7180112	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs8031192	0.90[CHB][hapmap];0.90[JPT][hapmap];0.84[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs8034113	0.85[AMR][1000 genomes]
rs9672390	0.84[CHB][hapmap];0.90[JPT][hapmap];0.81[ASN][1000 genomes]
rs9920076	1.00[CEU][hapmap];0.85[AMR][1000 genomes]
rs9920262	0.86[AMR][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	nsv917323	chr15:55290499-56041334	Genic enhancers Active TSS ZNF genes & repeats Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	nsv1043789	chr15:55400872-56092454	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
3	nsv948522	chr15:55639867-56032099	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
4	nsv457157	chr15:55722213-56255774	Flanking Active TSS Enhancers Active TSS Strong transcription Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
5	nsv569539	chr15:55722213-56255774	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
6	nsv1049774	chr15:55759573-56044600	Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
7	nsv833017	chr15:55965957-56157912	Weak transcription Genic enhancers Strong transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:55960800-55995800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr15:55986800-55992600	Weak transcription	GM12878-XiMat	blood
3	chr15:55987600-55995600	Weak transcription	Fetal Kidney	kidney
4	chr15:55987800-55996000	Weak transcription	HUES6 Cell Line	embryonic stem cell
5	chr15:55988000-55997200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr15:55988200-55993800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr15:55988400-55995000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr15:55988400-55995600	Weak transcription	Hela-S3	cervix
9	chr15:55988800-55991400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr15:55989200-55992600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr15:55989600-55990600	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr15:55989800-55995800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr15:55990000-55990600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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