Variant report

Variant	rs10888519
Chromosome Location	chr1:152901858-152901859
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs11205147	0.99[ASN][1000 genomes]
rs12027303	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12406539	0.88[CEU][hapmap]
rs12724858	0.89[EUR][1000 genomes]
rs12737395	0.86[EUR][1000 genomes]
rs12750261	0.89[EUR][1000 genomes]
rs12755214	0.91[EUR][1000 genomes]
rs12756264	0.89[EUR][1000 genomes]
rs1854779	0.88[CEU][hapmap]
rs2229496	0.88[CEU][hapmap]
rs34336093	0.85[EUR][1000 genomes]
rs34889136	0.86[EUR][1000 genomes]
rs35686780	0.94[EUR][1000 genomes]
rs36090881	1.00[ASN][1000 genomes]
rs3820136	0.88[CEU][hapmap]
rs4240864	1.00[ASN][1000 genomes]
rs4845328	0.98[ASN][1000 genomes]
rs4845498	1.00[ASN][1000 genomes]
rs60500053	1.00[ASN][1000 genomes]
rs61491150	0.99[ASN][1000 genomes]
rs71517761	0.92[EUR][1000 genomes]
rs71626737	0.92[EUR][1000 genomes]
rs71626738	0.89[EUR][1000 genomes]
rs71626739	0.89[EUR][1000 genomes]
rs71626740	0.88[EUR][1000 genomes]
rs7517189	0.88[CEU][hapmap]
rs7528862	0.88[CEU][hapmap]
rs7539232	0.88[CEU][hapmap]
rs913996	0.88[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013433	chr1:152619305-153262215	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	46 gene(s)	inside rSNPs	diseases
2	nsv535170	chr1:152619305-153262215	Enhancers Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	46 gene(s)	inside rSNPs	diseases
3	nsv1001834	chr1:152648853-153279143	Enhancers Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	44 gene(s)	inside rSNPs	diseases
4	nsv547899	chr1:152672005-153245082	Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	42 gene(s)	inside rSNPs	diseases
5	nsv831592	chr1:152815054-152997162	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
6	nsv998873	chr1:152869127-152975258	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
7	nsv1010488	chr1:152901263-153670972	Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	236 gene(s)	inside rSNPs	diseases
8	nsv535171	chr1:152901263-153670972	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	236 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:152896800-152905200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr1:152897000-152903000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr1:152901000-152902000	Enhancers	Liver	Liver
4	chr1:152901600-152903000	Weak transcription	HMEC	breast

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