Variant report

Variant	rs6048152
Chromosome Location	chr20:22501241-22501242
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FOXA2-3	chr20:22501062-22501253	XLOC_013683
2	lnc-FOXA2-3	chr20:22501062-22501358	XLOC_013683
3	lnc-FOXA2-3	chr20:22501062-22501585	NONHSAT078983

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

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

rs_ID	r²[population]
rs1203882	1.00[JPT][hapmap]
rs1203887	1.00[YRI][hapmap]
rs1203904	1.00[JPT][hapmap]
rs1415817	1.00[AMR][1000 genomes]
rs1415818	0.80[ASN][1000 genomes]
rs1538218	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1538219	0.90[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs1572580	0.87[ASN][1000 genomes]
rs1890207	0.87[ASN][1000 genomes]
rs1890208	0.87[ASN][1000 genomes]
rs1999862	0.87[ASN][1000 genomes]
rs2152935	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2404166	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2896772	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4813458	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4813461	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs4815118	0.87[ASN][1000 genomes]
rs4815120	0.87[ASN][1000 genomes]
rs6036133	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6036136	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6036139	0.87[ASN][1000 genomes]
rs6048150	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6048151	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6048161	0.87[ASN][1000 genomes]
rs6048170	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs6048174	0.80[ASN][1000 genomes]
rs6048175	0.84[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs6048176	0.80[ASN][1000 genomes]
rs6048181	0.85[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs6082724	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6082732	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6082736	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs6082739	0.87[ASN][1000 genomes]
rs6082740	0.80[ASN][1000 genomes]
rs6082741	0.90[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs6113696	0.87[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1066578	chr20:22472671-22513844	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats	Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:22496200-22503800	Weak transcription	Pancreas	Pancrea
2	chr20:22498200-22503800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr20:22500600-22503200	Weak transcription	Liver	Liver
4	chr20:22501000-22501400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr20:22501200-22502400	Weak transcription	HepG2	liver

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