Variant report

Variant	rs61566671
Chromosome Location	chr1:56084286-56084287
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10493193	0.97[EUR][1000 genomes]
rs10493194	0.97[EUR][1000 genomes]
rs10493195	0.98[EUR][1000 genomes]
rs11206626	0.97[EUR][1000 genomes]
rs11206627	0.97[EUR][1000 genomes]
rs11206635	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11805740	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12116670	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12117758	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12125730	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1846562	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1846563	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6588567	0.97[EUR][1000 genomes]
rs6670673	0.97[EUR][1000 genomes]
rs6680818	0.97[EUR][1000 genomes]
rs6681925	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6694680	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6694786	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7548272	0.97[EUR][1000 genomes]
rs7549716	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs769970	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs769989	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv10184	chr1:55728755-56084833	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	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
3	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
4	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	chr1:56063200-56089000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr1:56077200-56086000	Weak transcription	Aorta	Aorta
3	chr1:56082800-56087200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr1:56083000-56084400	Enhancers	Fetal Intestine Small	intestine
5	chr1:56083000-56084600	Enhancers	Fetal Intestine Large	intestine
6	chr1:56083800-56084600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
7	chr1:56084000-56086000	Weak transcription	Psoas Muscle	Psoas
8	chr1:56084200-56085400	Weak transcription	HepG2	liver

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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