Variant report

Variant	rs4860107
Chromosome Location	chr4:63013628-63013629
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-LPHN3-2	chr4:63010854-63014062	XLOC_003555
2	lnc-LPHN3-2	chr4:63010852-63014062	XLOC_003555
3	lnc-LPHN3-2	chr4:63010851-63014062	NONHSAT096620

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10006606	0.86[ASN][1000 genomes]
rs10013024	0.90[ASN][1000 genomes]
rs10017162	0.82[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs10030906	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11131359	0.88[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs12505655	0.83[ASN][1000 genomes]
rs12642767	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12645804	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12715708	0.90[ASN][1000 genomes]
rs13138506	0.88[ASN][1000 genomes]
rs17082585	0.92[ASN][1000 genomes]
rs2193118	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2193121	0.90[ASN][1000 genomes]
rs2193122	0.90[ASN][1000 genomes]
rs2216198	0.82[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs2344677	0.88[ASN][1000 genomes]
rs4397024	0.92[ASN][1000 genomes]
rs4446347	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4464598	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs4510488	0.90[ASN][1000 genomes]
rs4549412	0.90[ASN][1000 genomes]
rs4860454	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs58634974	0.86[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs60436468	0.82[ASN][1000 genomes]
rs6551678	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6551682	0.86[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs6551686	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs66917394	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs67603454	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6814490	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6822974	0.80[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs72640084	0.85[ASN][1000 genomes]
rs72640092	0.82[ASN][1000 genomes]
rs7664211	0.92[ASN][1000 genomes]
rs7667700	0.86[ASN][1000 genomes]
rs7696902	0.81[AFR][1000 genomes];0.95[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	nsv879078	chr4:62923797-63054757	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv594332	chr4:62976756-63034074	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription	TF binding region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1005620	chr4:62978115-63035387	Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Strong transcription	TF binding region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1013327	chr4:62989426-63149048	Enhancers Strong transcription Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	esv3358465	chr4:63013390-63013853	Weak transcription	lncRNA	1 gene(s)	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:63011800-63014800	Weak transcription	Left Ventricle	heart
2	chr4:63013200-63023200	Weak transcription	Fetal Heart	heart

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