Variant report

Variant	rs1949772
Chromosome Location	chr3:61250437-61250438
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs11130821	0.87[EUR][1000 genomes]
rs11130822	0.88[EUR][1000 genomes]
rs11130826	0.91[EUR][1000 genomes]
rs11130828	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11720254	0.88[EUR][1000 genomes]
rs12492551	0.91[EUR][1000 genomes]
rs13099397	0.80[ASN][1000 genomes]
rs13320646	0.81[JPT][hapmap]
rs1470035	0.82[CEU][hapmap];0.87[EUR][1000 genomes]
rs1524019	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1554599	0.83[CEU][hapmap];0.89[EUR][1000 genomes]
rs1554601	0.82[JPT][hapmap]
rs17064630	0.88[EUR][1000 genomes]
rs1916800	0.82[CEU][hapmap];0.88[EUR][1000 genomes]
rs1916801	0.83[CEU][hapmap];0.88[EUR][1000 genomes]
rs1916802	0.92[CEU][hapmap];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1980308	0.87[CEU][hapmap];0.89[EUR][1000 genomes]
rs1980309	0.87[CEU][hapmap];0.89[EUR][1000 genomes]
rs1980310	0.87[CEU][hapmap];0.89[EUR][1000 genomes]
rs1980311	0.88[EUR][1000 genomes]
rs2365389	0.96[CEU][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35198002	0.88[EUR][1000 genomes]
rs4296587	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4535219	0.95[CEU][hapmap];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4605537	0.91[EUR][1000 genomes]
rs4688352	0.86[EUR][1000 genomes]
rs4688354	0.87[EUR][1000 genomes]
rs4688355	0.88[EUR][1000 genomes]
rs4688379	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6445197	0.96[CEU][hapmap];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6445198	0.86[CEU][hapmap];0.92[EUR][1000 genomes]
rs6445199	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6445200	1.00[CEU][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6785875	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6787292	0.87[CEU][hapmap];0.88[EUR][1000 genomes]
rs6787313	0.86[EUR][1000 genomes]
rs6809031	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs71296711	0.91[EUR][1000 genomes]
rs7641177	0.81[JPT][hapmap]
rs7647122	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs815709	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs815710	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs815712	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs815715	0.90[EUR][1000 genomes]
rs815717	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs843812	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs863635	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9831249	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9832387	0.86[EUR][1000 genomes]
rs9832404	0.83[EUR][1000 genomes]
rs9844741	0.91[CEU][hapmap];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9846073	0.82[CEU][hapmap];0.88[EUR][1000 genomes]
rs9850114	0.91[EUR][1000 genomes]
rs9855716	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9856859	0.81[EUR][1000 genomes]
rs9859004	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9860681	0.84[EUR][1000 genomes]
rs9875827	0.87[EUR][1000 genomes]
rs9882800	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv876866	chr3:61054494-61310328	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv876867	chr3:61054494-61474575	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv432423	chr3:61100255-61606060	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv876868	chr3:61145050-61282503	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv532626	chr3:61159646-61388418	Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv1008399	chr3:61176965-61461349	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 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	chr3:61248400-61255200	Weak transcription	Left Ventricle	heart
2	chr3:61248600-61251800	Enhancers	Liver	Liver
3	chr3:61249200-61250600	Enhancers	Duodenum Mucosa	Duodenum
4	chr3:61249800-61250600	Enhancers	Stomach Mucosa	stomach
5	chr3:61250200-61250600	Enhancers	HepG2	liver

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