Variant report

Variant	rs28620592
Chromosome Location	chr3:53574241-53574242
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs1002578	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs10440150	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs1123895	1.00[ASN][1000 genomes]
rs13323471	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs17053146	0.95[ASN][1000 genomes]
rs3774427	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs3774429	0.95[ASN][1000 genomes]
rs3774430	0.87[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs3774442	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3774443	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3774447	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3821845	0.95[ASN][1000 genomes]
rs9311503	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9311504	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs9821489	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9865394	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs9882823	0.88[AMR][1000 genomes];0.95[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003621	chr3:53448934-54425322	Active TSS Strong transcription Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:53560600-53587000	Weak transcription	Duodenum Mucosa	Duodenum
2	chr3:53564800-53579400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr3:53566400-53583200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr3:53567800-53579400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr3:53569400-53581800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr3:53569600-53581800	Weak transcription	Fetal Intestine Large	intestine
7	chr3:53570600-53579200	Weak transcription	Fetal Lung	lung
8	chr3:53571000-53577600	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr3:53574200-53575600	Strong transcription	Fetal Intestine Small	intestine

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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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