Variant report

Variant	rs9853927
Chromosome Location	chr3:24593374-24593375
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:24592402..24594397-chr3:24594590..24596832,2	K562	blood:
2	chr3:24591863..24594583-chr3:24599435..24602083,2	K562	blood:
3	chr3:24587876..24590483-chr3:24591411..24594026,2	MCF-7	breast:
4	chr3:24582514..24584480-chr3:24591672..24593657,2	K562	blood:

Extended variants
information (count: 44 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10490837	0.85[CEU][hapmap];0.93[CHB][hapmap];0.91[MEX][hapmap];0.84[EUR][1000 genomes]
rs11708042	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11712286	0.93[CHB][hapmap];0.81[JPT][hapmap];0.87[ASN][1000 genomes]
rs13318800	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17014900	0.93[CHB][hapmap];0.86[EUR][1000 genomes]
rs17014902	0.82[CEU][hapmap];0.93[CHB][hapmap];0.85[JPT][hapmap];0.86[EUR][1000 genomes]
rs17029611	0.91[ASN][1000 genomes]
rs1992040	1.00[CEU][hapmap];0.93[CHB][hapmap];0.81[JPT][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1992041	0.87[ASN][1000 genomes]
rs2117873	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2117874	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2164428	0.93[JPT][hapmap]
rs2196435	0.85[CEU][hapmap]
rs2196438	1.00[CEU][hapmap];0.93[CHB][hapmap];0.96[CHD][hapmap];0.81[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28562279	0.82[EUR][1000 genomes]
rs3919672	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.82[GIH][hapmap];0.81[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap]
rs56268655	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6550879	0.86[CHB][hapmap];1.00[CHD][hapmap]
rs6767534	0.86[ASN][1000 genomes]
rs6769209	1.00[EUR][1000 genomes]
rs6771818	1.00[EUR][1000 genomes]
rs6795607	0.86[CHB][hapmap];1.00[CHD][hapmap]
rs73038411	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73038427	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73040438	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73040440	0.81[EUR][1000 genomes]
rs7647700	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9310745	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.80[GIH][hapmap];0.81[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9819865	0.86[CHB][hapmap];0.96[CHD][hapmap]
rs9823545	1.00[CEU][hapmap];0.93[CHB][hapmap];0.80[JPT][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9830859	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs9835497	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.80[GIH][hapmap];0.81[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9838616	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[CHD][hapmap];0.80[GIH][hapmap];0.81[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9838720	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[CHD][hapmap];0.81[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9843609	1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9844544	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9850781	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9861129	1.00[CEU][hapmap];0.92[CHB][hapmap];0.84[JPT][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9868375	1.00[CHB][hapmap];0.84[JPT][hapmap]
rs9873830	0.85[CEU][hapmap];1.00[CHB][hapmap];0.80[JPT][hapmap];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834641	chr3:24465862-24633738	Enhancers Bivalent Enhancer Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases
2	nsv834642	chr3:24475558-24640593	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases
3	nsv1012975	chr3:24500706-24615644	Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases
4	nsv999384	chr3:24525345-24656873	Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9853927	RPL15	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:24591800-24593600	Enhancers	Muscle Satellite Cultured Cells	--
2	chr3:24592200-24593800	Enhancers	HSMM	muscle

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