Variant report

Variant	rs1459820
Chromosome Location	chr4:53306861-53306862
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-USP46-4	chr4:53306660-53307701	NONHSAT096360

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10006949	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10016009	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10023109	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11942507	0.81[EUR][1000 genomes]
rs13127085	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13137915	0.87[EUR][1000 genomes]
rs1350651	0.94[CEU][hapmap];1.00[YRI][hapmap]
rs1459818	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1459823	0.85[EUR][1000 genomes]
rs1599190	0.85[EUR][1000 genomes]
rs1841263	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[EUR][1000 genomes]
rs186978	0.85[EUR][1000 genomes]
rs1903223	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2125785	0.86[EUR][1000 genomes]
rs2169103	0.85[EUR][1000 genomes]
rs238312	0.86[EUR][1000 genomes]
rs28843785	0.89[EUR][1000 genomes]
rs346901	0.86[EUR][1000 genomes]
rs346903	0.86[EUR][1000 genomes]
rs4865338	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4865354	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4865355	0.91[EUR][1000 genomes];0.84[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	nsv594201	chr4:52798624-53732445	Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
2	nsv879012	chr4:52976937-53421172	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv999397	chr4:53157525-53448384	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv1000805	chr4:53185153-53307008	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv829935	chr4:53205203-53399049	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:53306600-53307200	Enhancers	Fetal Kidney	kidney
2	chr4:53306800-53307200	Active TSS	Spleen	Spleen

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