Variant report

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SLC35A1-3	chr6:88159162-88159279	ucscGeneNc_uc003plt_1

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs13214153	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2103764	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2207144	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2207146	0.87[ASN][1000 genomes]
rs2268993	0.86[ASN][1000 genomes]
rs2268994	0.86[ASN][1000 genomes]
rs2273129	0.87[ASN][1000 genomes]
rs2284908	0.82[ASN][1000 genomes]
rs6454630	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6905947	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6912958	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6914299	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6933587	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7761814	0.85[ASN][1000 genomes]
rs9294379	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9294381	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9444504	0.87[ASN][1000 genomes]
rs9450701	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9450704	0.87[ASN][1000 genomes]
rs9450712	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1018155	chr6:88049729-88272862	Strong transcription Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv830722	chr6:88054186-88223625	Enhancers Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv1031961	chr6:88110401-88367006	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
4	nsv1031460	chr6:88153079-88410050	Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases

mRNA abundance (count:9)

SNP	Gene	Cis/trans	Tissue	Source
rs9450688	C6orf164	cis	Skin Sun Exposed Lower leg	GTEx
rs9450688	SLC35A1	Cis_1M	lymphoblastoid	RTeQTL
rs9450688	C6orf164	cis	Whole Blood	GTEx
rs9450688	C6orf164	cis	Esophagus Muscularis	GTEx
rs9450688	C6orf163	Cis_1M	lymphoblastoid	RTeQTL
rs9450688	C6orf162	Cis_1M	lymphoblastoid	RTeQTL
rs9450688	C6orf164	cis	lung	GTEx
rs9450688	C6orf164	cis	Thyroid	GTEx
rs9450688	SLC35A1	cis	multi-tissue	Pritchard

Chromatin state (count:0 , 50 per page) page:

No data

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