Variant report

Variant	rs61776377
Chromosome Location	chr1:56089483-56089484
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10493196	0.85[EUR][1000 genomes]
rs10749702	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11206625	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11206629	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11206636	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11206637	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11206638	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11206639	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11807964	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12026971	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12040862	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12041985	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12086546	0.82[EUR][1000 genomes]
rs12132336	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12139752	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12142554	0.85[EUR][1000 genomes]
rs12401977	0.83[EUR][1000 genomes]
rs1392128	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1392129	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1392130	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1392131	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1392132	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1587432	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1604016	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17112402	0.84[EUR][1000 genomes]
rs17417716	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56169646	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61776360	0.85[EUR][1000 genomes]
rs61776375	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6669248	0.85[EUR][1000 genomes]
rs709397	1.00[ASN][1000 genomes]
rs7513395	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7525515	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7544458	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7546899	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7555929	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7556008	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs769971	1.00[ASN][1000 genomes]
rs769984	1.00[ASN][1000 genomes]

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	nsv461617	chr1:56055190-56123510	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
2	nsv546303	chr1:56055190-56123510	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	nsv1014866	chr1:56059054-56129092	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:56089000-56089600	Enhancers	Fetal Kidney	kidney
2	chr1:56089000-56090400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr1:56089000-56104000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr1:56089200-56089600	Weak transcription	Fetal Lung	lung
5	chr1:56089400-56089800	Enhancers	Fetal Heart	heart
6	chr1:56089400-56090200	Weak transcription	Ovary	ovary
7	chr1:56089400-56091800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr1:56089400-56092400	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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