Variant report

Variant	rs62254144
Chromosome Location	chr3:54333138-54333139
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs3934631	0.86[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs3934632	0.90[ASN][1000 genomes]
rs4078006	0.90[ASN][1000 genomes]
rs4078007	0.90[ASN][1000 genomes]
rs41277447	0.91[EUR][1000 genomes]
rs55715726	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs55751124	0.91[ASN][1000 genomes]
rs55777513	0.89[ASN][1000 genomes]
rs55817503	0.90[ASN][1000 genomes]
rs56034762	0.83[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs56198536	0.90[ASN][1000 genomes]
rs56271940	0.86[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs56305246	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56348221	0.90[ASN][1000 genomes]
rs56352534	0.90[ASN][1000 genomes]
rs56362821	0.86[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs57711599	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs57836319	0.86[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs57897895	0.90[ASN][1000 genomes]
rs57945354	0.89[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs58976292	0.89[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs59461034	0.89[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs59804205	0.90[ASN][1000 genomes]
rs59804657	0.89[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs60855497	0.90[ASN][1000 genomes]
rs60921965	0.93[EUR][1000 genomes]
rs61027914	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs61200778	0.86[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs61444952	0.89[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs61566355	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62254148	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs62254149	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62254157	0.90[ASN][1000 genomes]
rs62254159	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs62256061	0.90[EUR][1000 genomes]
rs62256085	0.90[EUR][1000 genomes]
rs62256091	0.91[EUR][1000 genomes]
rs62256099	0.90[EUR][1000 genomes]
rs6445641	0.86[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs6445643	0.86[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs6445644	0.90[ASN][1000 genomes]
rs6445646	0.92[EUR][1000 genomes]
rs6769262	0.91[EUR][1000 genomes]
rs6781457	0.90[ASN][1000 genomes]
rs6790114	0.90[ASN][1000 genomes]
rs6810291	0.83[EUR][1000 genomes]
rs7426971	0.82[EUR][1000 genomes]
rs7427601	0.86[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs7428097	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7428562	0.90[ASN][1000 genomes]
rs7428712	0.87[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs7430091	0.87[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs7432978	0.86[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs7433995	0.90[ASN][1000 genomes]
rs7434141	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7434171	0.87[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs7615455	0.90[ASN][1000 genomes]
rs7622924	0.90[ASN][1000 genomes]
rs7635568	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7645884	0.90[ASN][1000 genomes]
rs7649860	0.86[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs9714322	0.89[AFR][1000 genomes];0.90[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:5 , 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	chr3:54332200-54333400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
3	chr3:54332200-54343600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr3:54332400-54337600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr3:54332600-54333400	Weak transcription	iPS-18 Cell Line	embryonic stem cell

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