Variant report

Variant	rs3774492
Chromosome Location	chr3:53664429-53664430
allele	C/T
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]
rs1401492	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3774450	1.00[CEU][hapmap]
rs3774508	1.00[CEU][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3774519	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3774529	0.91[EUR][1000 genomes]
rs3774538	0.91[EUR][1000 genomes]
rs6784608	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6792713	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6802110	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6802129	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs73840164	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9871578	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][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	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	nsv1001128	chr3:53659570-53927842	Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 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	chr3:53652800-53684000	Weak transcription	Right Atrium	heart
2	chr3:53659400-53664600	Weak transcription	Fetal Kidney	kidney
3	chr3:53661400-53667200	Weak transcription	Fetal Intestine Large	intestine
4	chr3:53661600-53665000	Weak transcription	Fetal Intestine Small	intestine
5	chr3:53662000-53665400	Enhancers	Stomach Mucosa	stomach
6	chr3:53662200-53664800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr3:53662200-53664800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr3:53663400-53665000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr3:53663600-53664600	Weak transcription	HMEC	breast
10	chr3:53663800-53664800	Weak transcription	Esophagus	oesophagus
11	chr3:53664000-53664600	Enhancers	A549	lung
12	chr3:53664000-53665000	Enhancers	HepG2	liver
13	chr3:53664000-53668600	Weak transcription	Gastric	stomach
14	chr3:53664200-53664600	Enhancers	Hela-S3	cervix
15	chr3:53664200-53665000	Weak transcription	Pancreas	Pancrea
16	chr3:53664200-53665200	Weak transcription	Fetal Lung	lung
17	chr3:53664400-53665200	Weak transcription	Pancreatic Islets	Pancreatic Islet

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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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