Variant report

Variant	rs28858178
Chromosome Location	chr3:42763787-42763788
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs13320636	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17074768	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28508577	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56951149	1.00[AFR][1000 genomes]
rs57373619	0.96[AFR][1000 genomes]
rs57865869	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9811777	0.96[AFR][1000 genomes]
rs9814373	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9825860	0.96[AFR][1000 genomes]
rs9851176	1.00[AMR][1000 genomes]
rs9877691	1.00[AMR][1000 genomes]
rs9879906	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013578	chr3:42747858-42817321	Enhancers Flanking Active TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv999713	chr3:42749022-42817321	Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:42760400-42769600	Weak transcription	Right Atrium	heart
2	chr3:42760400-42773600	Enhancers	Brain Substantia Nigra	brain
3	chr3:42761200-42768600	Weak transcription	Left Ventricle	heart
4	chr3:42761400-42764600	Weak transcription	Fetal Heart	heart
5	chr3:42762600-42763800	Enhancers	Brain Inferior Temporal Lobe	brain
6	chr3:42762600-42765000	Enhancers	Skeletal Muscle Male	skeletal muscle
7	chr3:42762800-42768000	Enhancers	Brain Hippocampus Middle	brain
8	chr3:42763200-42763800	Enhancers	Colon Smooth Muscle	Colon
9	chr3:42763200-42765200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr3:42763400-42764000	Enhancers	Brain Cingulate Gyrus	brain
11	chr3:42763400-42764600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr3:42763400-42765400	Enhancers	Skeletal Muscle Female	skeletal muscle
13	chr3:42763600-42763800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr3:42763600-42764000	Enhancers	Psoas Muscle	Psoas
15	chr3:42763600-42764600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
16	chr3:42763600-42773600	Enhancers	Brain Anterior Caudate	brain
17	chr3:42763600-42774800	Enhancers	Brain Angular Gyrus	brain

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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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