Variant report

Variant	rs28506946
Chromosome Location	chr4:19457063-19457064
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SLIT2-1	chr4:19457059-19457275	ENSG00000248515.1

Extended variants
information (count: 87 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:84)

rs_ID	r²[population]
rs10003702	0.86[ASN][1000 genomes]
rs10006103	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10006299	0.99[ASN][1000 genomes]
rs10009772	0.98[ASN][1000 genomes]
rs10012861	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10015294	0.94[ASN][1000 genomes]
rs10025775	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10028337	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10031579	0.88[ASN][1000 genomes]
rs10032188	0.98[ASN][1000 genomes]
rs10032629	0.94[ASN][1000 genomes]
rs10034324	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10212992	0.87[ASN][1000 genomes]
rs10222803	0.99[ASN][1000 genomes]
rs10222907	0.99[ASN][1000 genomes]
rs10222971	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10223045	0.99[ASN][1000 genomes]
rs10470799	0.93[ASN][1000 genomes]
rs11933898	0.87[ASN][1000 genomes]
rs11941599	0.97[ASN][1000 genomes]
rs11941815	1.00[ASN][1000 genomes]
rs11943058	0.86[ASN][1000 genomes]
rs11943773	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11944084	0.82[ASN][1000 genomes]
rs11945412	0.97[ASN][1000 genomes]
rs11946126	1.00[ASN][1000 genomes]
rs13434929	0.86[ASN][1000 genomes]
rs1388145	0.86[ASN][1000 genomes]
rs1388148	0.89[ASN][1000 genomes]
rs16868608	0.89[ASN][1000 genomes]
rs28392619	0.99[ASN][1000 genomes]
rs28406392	0.97[ASN][1000 genomes]
rs28445313	0.88[ASN][1000 genomes]
rs28468581	0.94[ASN][1000 genomes]
rs28505527	0.96[ASN][1000 genomes]
rs28584356	0.89[ASN][1000 genomes]
rs28612466	0.88[ASN][1000 genomes]
rs28625215	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28649908	0.97[ASN][1000 genomes]
rs28654609	0.99[ASN][1000 genomes]
rs28662302	0.97[ASN][1000 genomes]
rs28675174	0.94[ASN][1000 genomes]
rs28698715	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28713269	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28749929	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28809022	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28834385	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28849735	0.94[ASN][1000 genomes]
rs28861473	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4380521	0.88[ASN][1000 genomes]
rs4472135	0.88[ASN][1000 genomes]
rs4541506	0.97[ASN][1000 genomes]
rs4572879	0.88[ASN][1000 genomes]
rs4637398	0.97[ASN][1000 genomes]
rs59192349	0.86[ASN][1000 genomes]
rs59810064	0.97[ASN][1000 genomes]
rs60069867	0.97[ASN][1000 genomes]
rs60284344	0.89[ASN][1000 genomes]
rs61359326	0.89[ASN][1000 genomes]
rs62296707	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62296709	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62298737	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6837423	0.97[ASN][1000 genomes]
rs73092965	0.94[ASN][1000 genomes]
rs73092970	0.94[ASN][1000 genomes]
rs73092977	0.94[ASN][1000 genomes]
rs73092981	0.94[ASN][1000 genomes]
rs73092983	0.94[ASN][1000 genomes]
rs73092984	0.94[ASN][1000 genomes]
rs73097402	0.97[ASN][1000 genomes]
rs73099604	0.97[ASN][1000 genomes]
rs73099613	0.97[ASN][1000 genomes]
rs73099658	0.97[ASN][1000 genomes]
rs73099698	0.89[ASN][1000 genomes]
rs73101116	0.89[ASN][1000 genomes]
rs73101119	0.89[ASN][1000 genomes]
rs73110735	0.89[ASN][1000 genomes]
rs73110746	0.86[ASN][1000 genomes]
rs9291404	0.88[ASN][1000 genomes]
rs982066	0.89[ASN][1000 genomes]
rs982067	0.89[ASN][1000 genomes]
rs9990468	0.97[ASN][1000 genomes]
rs9994751	0.88[ASN][1000 genomes]
rs9998589	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[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	nsv593785	chr4:19092157-19521956	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv878732	chr4:19172031-19660947	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv878733	chr4:19335464-19928602	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	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	chr4:19456800-19458800	Active TSS	Placenta	Placenta
2	chr4:19457000-19457400	Active TSS	Fetal Muscle Trunk	muscle

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