Variant report

Variant	rs11711662
Chromosome Location	chr3:54407766-54407767
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs11709302	0.89[EUR][1000 genomes]
rs13082754	0.87[CEU][hapmap];0.81[JPT][hapmap]
rs1375521	0.87[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs1375522	0.88[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1449331	0.88[CEU][hapmap];0.86[JPT][hapmap];0.87[YRI][hapmap];0.88[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs1473348	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2359785	0.90[EUR][1000 genomes]
rs2359786	0.87[CEU][hapmap];0.90[JPT][hapmap];0.90[EUR][1000 genomes]
rs6445653	0.88[CEU][hapmap];0.85[JPT][hapmap]
rs6445655	0.87[CEU][hapmap];0.85[JPT][hapmap]
rs6445657	0.84[EUR][1000 genomes]
rs6769553	0.83[CEU][hapmap];0.83[EUR][1000 genomes]
rs6777368	0.84[EUR][1000 genomes]
rs6804196	0.87[CEU][hapmap]
rs731508	0.87[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs7372585	0.87[AFR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7374435	0.88[CEU][hapmap];0.88[EUR][1000 genomes]
rs7426795	0.84[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes]
rs7645545	0.88[CEU][hapmap];0.89[EUR][1000 genomes]
rs7653648	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9817603	0.87[CEU][hapmap]
rs9826277	0.87[CEU][hapmap];0.86[JPT][hapmap];0.90[EUR][1000 genomes]
rs9843412	0.87[CEU][hapmap];0.88[CHB][hapmap];0.90[JPT][hapmap];0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9864105	0.88[CEU][hapmap];0.86[JPT][hapmap];0.90[EUR][1000 genomes]
rs9874831	0.87[EUR][1000 genomes];0.81[ASN][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	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	nsv817210	chr3:54365684-54511164	Enhancers Active TSS Bivalent Enhancer Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv428084	chr3:54404258-54742756	Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 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	chr3:54392600-54410200	Weak transcription	Ovary	ovary
2	chr3:54395400-54407800	Weak transcription	Hela-S3	cervix
3	chr3:54395400-54409000	Weak transcription	Right Atrium	heart
4	chr3:54401000-54409600	Weak transcription	Fetal Lung	lung
5	chr3:54406400-54410200	Weak transcription	Psoas Muscle	Psoas
6	chr3:54407000-54408000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
7	chr3:54407600-54408600	Enhancers	Primary hematopoietic stem cells	blood
8	chr3:54407600-54408800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr3:54407600-54408800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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