Variant report

Variant	rs9880047
Chromosome Location	chr3:56266100-56266101
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10510784	0.81[EUR][1000 genomes]
rs11707901	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11719428	0.90[CHB][hapmap];0.93[JPT][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12488385	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12490423	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12639313	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13065094	0.81[EUR][1000 genomes]
rs1352013	0.86[EUR][1000 genomes]
rs1352014	0.86[EUR][1000 genomes]
rs1452203	0.80[EUR][1000 genomes]
rs1452208	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1452209	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1452210	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1485677	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1485679	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17235431	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17235452	0.90[ASN][1000 genomes]
rs17235466	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17634512	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1947347	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1994295	0.82[EUR][1000 genomes]
rs2123182	0.81[EUR][1000 genomes]
rs2316861	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35721039	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4974185	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4974186	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs55853651	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6445777	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6763223	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6764950	0.93[JPT][hapmap]
rs6771628	0.82[EUR][1000 genomes]
rs6774658	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6782312	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6786714	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6794479	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs73080547	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73080560	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7616016	0.89[CHB][hapmap];0.93[JPT][hapmap];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7636668	0.81[EUR][1000 genomes]
rs7649615	0.81[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7653658	0.82[EUR][1000 genomes]
rs7653768	0.81[EUR][1000 genomes]
rs9311598	1.00[JPT][hapmap]
rs9311599	0.80[ASN][1000 genomes]
rs9809991	0.82[EUR][1000 genomes]
rs9847090	0.82[EUR][1000 genomes]
rs9880422	0.81[EUR][1000 genomes]
rs991335	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[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	nsv1009709	chr3:56000827-56294945	Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56252000-56272200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr3:56254800-56280600	Weak transcription	H9 Cell Line	embryonic stem cell

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