Variant report

Variant	rs7339890
Chromosome Location	chr1:93897624-93897625
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs1079750	1.00[CEU][hapmap]
rs11164922	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11164926	0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11164930	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs11164940	1.00[CEU][hapmap];0.88[CHD][hapmap];0.85[MEX][hapmap];0.85[TSI][hapmap];0.81[EUR][1000 genomes]
rs11811006	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12060221	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12062584	0.83[EUR][1000 genomes]
rs12069440	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12096122	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12096561	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12410122	0.85[CEU][hapmap]
rs12410123	0.88[CHD][hapmap];0.85[TSI][hapmap]
rs12411095	0.80[EUR][1000 genomes]
rs1582773	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17109951	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17109997	1.00[CEU][hapmap];0.85[MEX][hapmap];0.85[TSI][hapmap];0.83[EUR][1000 genomes]
rs17131718	0.80[EUR][1000 genomes]
rs17131741	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs1895903	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2011212	0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2038698	0.82[EUR][1000 genomes]
rs2081568	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2624437	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.85[TSI][hapmap];0.88[ASN][1000 genomes]
rs3088371	0.85[CEU][hapmap];0.82[EUR][1000 genomes]
rs57710451	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs59792151	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs60013975	0.80[EUR][1000 genomes]
rs61101021	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs61580948	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs66804824	0.80[EUR][1000 genomes]
rs6688111	0.91[EUR][1000 genomes]
rs67012296	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs67998457	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs72719185	0.84[EUR][1000 genomes]
rs72721009	0.81[EUR][1000 genomes]
rs72721010	0.81[EUR][1000 genomes]
rs72721014	0.81[EUR][1000 genomes]
rs72721019	0.81[EUR][1000 genomes]
rs72961351	0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7539210	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.85[TSI][hapmap];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7541984	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7553695	0.94[ASN][1000 genomes]
rs900310	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv871640	chr1:93807122-93953469	Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
2	esv3375834	chr1:93872980-93904647	ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	Chromatin interactive region	5 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	chr1:93893600-93898000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr1:93893600-93899200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr1:93893600-93899200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr1:93893600-93899400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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