Variant report

Variant	rs62254145
Chromosome Location	chr3:54333671-54333672
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:17)

rs_ID	r²[population]
rs3934633	0.81[ASN][1000 genomes]
rs55715726	0.90[ASN][1000 genomes]
rs55768606	0.81[ASN][1000 genomes]
rs55826666	0.81[ASN][1000 genomes]
rs55982339	0.81[ASN][1000 genomes]
rs56212431	0.81[ASN][1000 genomes]
rs56411589	0.81[ASN][1000 genomes]
rs57211759	0.81[ASN][1000 genomes]
rs57711599	0.92[ASN][1000 genomes]
rs61027914	0.92[ASN][1000 genomes]
rs62254148	0.92[ASN][1000 genomes]
rs62254159	0.90[ASN][1000 genomes]
rs62256089	0.95[EUR][1000 genomes]
rs6445640	0.81[ASN][1000 genomes]
rs6790309	1.00[AFR][1000 genomes]
rs7428097	0.90[ASN][1000 genomes]
rs7434141	0.92[ASN][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	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	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
3	nsv817328	chr3:54250314-54380438	Enhancers Genic enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:54331000-54334200	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr3:54332200-54343600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr3:54332400-54337600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr3:54333200-54333800	Active TSS	Brain Substantia Nigra	brain
5	chr3:54333200-54334000	Enhancers	Liver	Liver
6	chr3:54333200-54334000	Active TSS	Brain Anterior Caudate	brain
7	chr3:54333400-54333800	Flanking Active TSS	Pancreatic Islets	Pancreatic Islet
8	chr3:54333600-54338200	Weak transcription	Brain Hippocampus Middle	brain

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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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