Variant report

Variant	rs9828425
Chromosome Location	chr3:54194892-54194893
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs12715465	1.00[AMR][1000 genomes]
rs13319005	1.00[AMR][1000 genomes]
rs13322337	1.00[AMR][1000 genomes]
rs28560392	1.00[AMR][1000 genomes]
rs9809130	1.00[AMR][1000 genomes]
rs9816122	1.00[AMR][1000 genomes]
rs9818571	1.00[AMR][1000 genomes]
rs9830052	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9836702	1.00[AMR][1000 genomes]
rs9844238	1.00[AMR][1000 genomes]
rs9844994	1.00[AMR][1000 genomes]
rs9845702	1.00[AMR][1000 genomes]
rs9858447	1.00[AMR][1000 genomes]
rs9861079	1.00[AMR][1000 genomes]
rs9863977	1.00[AMR][1000 genomes]
rs9877208	1.00[AMR][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	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
2	nsv1006990	chr3:53849510-54285212	Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv1014595	chr3:53944473-54846754	Enhancers Bivalent Enhancer Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv1014157	chr3:54168755-54332321	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 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	chr3:54181000-54195000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr3:54192600-54195400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr3:54192600-54202400	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr3:54192800-54202200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr3:54193000-54195200	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr3:54193000-54195400	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr3:54193200-54195600	Weak transcription	Stomach Smooth Muscle	stomach
8	chr3:54193200-54197800	Weak transcription	Brain Anterior Caudate	brain
9	chr3:54193200-54202000	Weak transcription	iPS-18 Cell Line	embryonic stem cell

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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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