Variant report

Variant	rs1549838
Chromosome Location	chr3:146502518-146502519
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 57 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1003263	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1003264	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1019897	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10935642	0.94[ASN][1000 genomes]
rs10935643	0.88[ASN][1000 genomes]
rs11705960	0.99[ASN][1000 genomes]
rs12497166	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1606177	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1606178	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17371141	0.88[ASN][1000 genomes]
rs17701818	0.99[ASN][1000 genomes]
rs1991715	0.89[ASN][1000 genomes]
rs28493260	0.99[ASN][1000 genomes]
rs28624889	0.99[ASN][1000 genomes]
rs28885973	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3843364	0.99[ASN][1000 genomes]
rs4681336	0.95[ASN][1000 genomes]
rs55895997	0.85[ASN][1000 genomes]
rs56887948	0.97[ASN][1000 genomes]
rs58890956	0.99[ASN][1000 genomes]
rs62272988	0.95[ASN][1000 genomes]
rs6440455	0.88[ASN][1000 genomes]
rs6440458	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6440459	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6440460	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6762735	0.97[ASN][1000 genomes]
rs6808136	0.99[ASN][1000 genomes]
rs7619766	0.99[ASN][1000 genomes]
rs7638634	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9289731	0.97[ASN][1000 genomes]
rs9289732	0.93[ASN][1000 genomes]
rs961897	0.84[ASN][1000 genomes]
rs981484	0.99[ASN][1000 genomes]
rs9828677	0.93[ASN][1000 genomes]
rs9831862	0.94[ASN][1000 genomes]
rs9834967	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9835606	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9840734	0.88[ASN][1000 genomes]
rs9841610	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9841625	0.99[ASN][1000 genomes]
rs9841883	0.99[ASN][1000 genomes]
rs9842074	0.88[ASN][1000 genomes]
rs9845940	0.99[ASN][1000 genomes]
rs9856265	0.99[ASN][1000 genomes]
rs9857850	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9861781	0.99[ASN][1000 genomes]
rs9861946	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9862944	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv516386	chr3:146366513-146758405	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv591961	chr3:146394094-146725217	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv1007875	chr3:146401461-146776618	Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv877624	chr3:146414837-146536741	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv998040	chr3:146416916-146729962	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv536760	chr3:146416916-146729962	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
7	nsv1001931	chr3:146419061-146745361	Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
8	nsv877625	chr3:146461435-146521978	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv980074	chr3:146501991-146511951	Weak transcription Enhancers	n/a	n/a	inside rSNPs	n/a

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:146499200-146503400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr3:146499600-146502800	Weak transcription	HUES6 Cell Line	embryonic stem cell
3	chr3:146501400-146503400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
4	chr3:146501600-146502600	Weak transcription	iPS-18 Cell Line	embryonic stem cell

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