Variant report

Variant	rs12486971
Chromosome Location	chr3:89325083-89325084
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs1040016	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11916046	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11916939	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11920519	0.90[CEU][hapmap];0.94[CHB][hapmap];0.90[JPT][hapmap];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11929346	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12486528	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12496485	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13060907	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13081450	0.90[CEU][hapmap];0.83[CHB][hapmap]
rs13097740	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13100590	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17026797	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17026821	0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1996068	0.87[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1996069	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2346324	0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2346325	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34046877	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs34922683	0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35532963	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35800684	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs36076607	0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3946805	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs60475411	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6551395	0.82[CEU][hapmap]
rs6777119	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6791217	0.91[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6794198	0.89[CEU][hapmap];0.94[CHB][hapmap];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6797343	0.82[CEU][hapmap]
rs71322864	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs71322865	0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs71322866	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7629132	0.90[CEU][hapmap];0.94[CHB][hapmap];0.90[JPT][hapmap];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7631304	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7633559	0.86[CEU][hapmap]
rs907713	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9310113	0.82[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv437866	chr3:89247881-89480265	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
2	nsv590921	chr3:89294149-89392778	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv590922	chr3:89314862-89417064	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:89317800-89325400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
2	chr3:89323400-89325400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr3:89325000-89326800	Enhancers	iPS-20b Cell Line	embryonic stem cell

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