Variant report

Variant	rs62253004
Chromosome Location	chr3:53978282-53978283
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs1020082	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12632292	0.80[EUR][1000 genomes]
rs17053568	0.86[ASN][1000 genomes]
rs1982171	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2241806	0.80[EUR][1000 genomes]
rs2276840	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2276843	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2276844	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2276845	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2304575	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2304576	0.81[EUR][1000 genomes]
rs2884631	0.82[EUR][1000 genomes]
rs3017	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3733075	0.82[EUR][1000 genomes]
rs3733079	0.87[ASN][1000 genomes]
rs3733083	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3821868	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3821869	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4141606	0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs45511795	0.80[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4687594	0.80[EUR][1000 genomes]
rs4687753	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4687758	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs57398949	0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62253003	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62253005	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6445612	0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs709324	0.82[EUR][1000 genomes]
rs73078007	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9840445	0.83[ASN][1000 genomes]
rs9849951	0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9850063	0.80[EUR][1000 genomes]
rs9860367	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9880056	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs999515	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 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	nsv1006990	chr3:53849510-54285212	Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv1014752	chr3:53912429-54123246	Active TSS Bivalent Enhancer Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Bivalent/Poised TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
4	nsv1005411	chr3:53927782-54158638	Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs62253004	SELK	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:53978000-53978600	Enhancers	Ovary	ovary

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