Variant report

Variant	rs62228853
Chromosome Location	chr3:24512109-24512110
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs62228829	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62228850	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62228852	1.00[EUR][1000 genomes]
rs62228855	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62228856	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62228859	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs62230460	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62230463	1.00[AMR][1000 genomes]
rs62230464	1.00[AMR][1000 genomes]
rs721216	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73036459	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs73036460	1.00[AMR][1000 genomes]
rs9845983	1.00[EUR][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	nsv834641	chr3:24465862-24633738	Enhancers Bivalent Enhancer Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases
2	nsv834642	chr3:24475558-24640593	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases
3	nsv1012975	chr3:24500706-24615644	Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:24499600-24526800	Weak transcription	Rectal Mucosa Donor 31	rectum
2	chr3:24499800-24512600	Weak transcription	Psoas Muscle	Psoas
3	chr3:24503000-24513200	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr3:24503200-24517200	Weak transcription	Colon Smooth Muscle	Colon
5	chr3:24504600-24517400	Weak transcription	Right Ventricle	heart
6	chr3:24509600-24531000	Weak transcription	Fetal Lung	lung
7	chr3:24510000-24517400	Weak transcription	NHDF-Ad	bronchial
8	chr3:24510200-24513000	Weak transcription	Adipose Nuclei	Adipose
9	chr3:24510400-24513200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr3:24510600-24513000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr3:24511000-24517400	Weak transcription	Fetal Intestine Small	intestine
12	chr3:24511800-24513000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr3:24511800-24513000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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Input of quick search could be:

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

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