Variant report

Variant	rs535689
Chromosome Location	chr3:23024216-23024217
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs506284	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs520582	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs528649	0.87[EUR][1000 genomes]
rs529219	0.92[ASW][hapmap];0.91[CEU][hapmap];0.95[CHB][hapmap];0.91[CHD][hapmap];0.97[GIH][hapmap];0.97[LWK][hapmap];0.95[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs537660	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs549968	1.00[ASW][hapmap];0.96[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];0.97[LWK][hapmap];0.94[MEX][hapmap];0.94[MKK][hapmap];0.98[TSI][hapmap];0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs55652823	0.81[EUR][1000 genomes]
rs601598	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs621200	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs633464	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs711725	0.88[EUR][1000 genomes]
rs822768	0.88[EUR][1000 genomes]
rs822775	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs822776	0.89[AFR][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	nsv1014828	chr3:22554271-23033498	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1008306	chr3:22762892-23026548	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv522927	chr3:23023574-23026888	Enhancers Bivalent Enhancer Weak transcription	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs535689	RARB	cis	cerebellum	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23019200-23024800	Enhancers	Fetal Heart	heart
2	chr3:23022000-23024400	Weak transcription	Brain Germinal Matrix	brain
3	chr3:23022200-23024400	Weak transcription	Placenta	Placenta
4	chr3:23022200-23024600	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr3:23022800-23025000	Enhancers	HSMMtube	muscle
6	chr3:23023200-23024600	Weak transcription	Fetal Lung	lung
7	chr3:23024200-23025800	Enhancers	Hela-S3	cervix

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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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