Variant report

Variant	rs17811680
Chromosome Location	chr8:85892438-85892439
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C8orf59-3	chr8:85892308-85892782	NONHSAT127510

Extended variants
information (count: 81 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs10046686	0.81[CHB][hapmap];0.91[CHD][hapmap];0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs10081441	0.85[ASN][1000 genomes]
rs10088120	0.86[JPT][hapmap]
rs10088722	0.85[ASN][1000 genomes]
rs10091232	0.87[ASN][1000 genomes]
rs10091245	0.81[CHB][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs10094238	0.85[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs10094828	0.89[ASN][1000 genomes]
rs10095636	0.84[ASN][1000 genomes]
rs10095682	0.81[CHB][hapmap];0.88[CHD][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs10099017	0.84[ASN][1000 genomes]
rs10100687	0.90[ASN][1000 genomes]
rs10100806	0.90[ASN][1000 genomes]
rs10104630	0.82[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs10104687	0.86[ASN][1000 genomes]
rs10105658	0.88[ASN][1000 genomes]
rs10109018	0.85[ASN][1000 genomes]
rs10110570	0.84[ASN][1000 genomes]
rs10110879	0.86[ASN][1000 genomes]
rs1025232	0.88[ASN][1000 genomes]
rs10958229	0.80[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs10958230	0.85[ASN][1000 genomes]
rs10958232	0.88[ASN][1000 genomes]
rs10958233	0.87[ASN][1000 genomes]
rs11775584	0.88[ASN][1000 genomes]
rs12542468	0.91[ASN][1000 genomes]
rs12604	0.81[CHB][hapmap];0.88[CHD][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs12675186	0.85[ASN][1000 genomes]
rs13267859	0.88[CHD][hapmap];0.90[JPT][hapmap];0.88[ASN][1000 genomes]
rs13269739	0.85[JPT][hapmap]
rs13273360	0.96[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1365668	0.81[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs1365677	0.84[ASN][1000 genomes]
rs1365678	0.80[CHB][hapmap];0.94[JPT][hapmap];0.84[ASN][1000 genomes]
rs1404365	0.91[ASN][1000 genomes]
rs1524642	0.90[ASN][1000 genomes]
rs1851973	0.86[CHB][hapmap];0.91[CHD][hapmap];0.95[JPT][hapmap];0.84[MEX][hapmap];0.90[ASN][1000 genomes]
rs1946400	0.81[CHB][hapmap];0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs1991347	0.88[ASN][1000 genomes]
rs1991348	0.88[ASN][1000 genomes]
rs1991349	0.88[ASN][1000 genomes]
rs1991350	0.81[CHB][hapmap];0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs1991351	0.81[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs1991352	0.81[CHB][hapmap];0.91[CHD][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs2059678	0.85[ASN][1000 genomes]
rs2059679	0.81[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs2059680	0.81[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs2081673	0.89[ASN][1000 genomes]
rs2140688	0.91[ASN][1000 genomes]
rs2712	0.88[ASN][1000 genomes]
rs28592585	0.88[ASN][1000 genomes]
rs2896454	0.86[JPT][hapmap]
rs34103685	0.86[JPT][hapmap]
rs34327710	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35068782	0.82[ASN][1000 genomes]
rs35382421	0.84[ASN][1000 genomes]
rs3779899	0.85[JPT][hapmap]
rs3900098	0.88[ASN][1000 genomes]
rs3937521	0.81[CHB][hapmap];0.90[CHD][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs3942601	0.90[ASN][1000 genomes]
rs4740035	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6990756	0.81[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs7003643	0.89[ASN][1000 genomes]
rs7008839	0.80[CHB][hapmap];0.89[JPT][hapmap];0.88[ASN][1000 genomes]
rs7010343	0.81[CHB][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs7015758	0.86[JPT][hapmap]
rs7829050	0.86[JPT][hapmap]
rs7832097	0.89[CHB][hapmap];0.93[JPT][hapmap];0.85[ASN][1000 genomes]
rs7838564	0.88[ASN][1000 genomes]
rs7838940	0.81[CHB][hapmap];0.90[CHD][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs9298433	0.90[ASN][1000 genomes]
rs9650296	0.88[ASN][1000 genomes]
rs965734	0.81[CHB][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs9692810	0.91[ASN][1000 genomes]
rs9692962	0.82[CHB][hapmap];0.95[CHD][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs9693371	0.91[ASN][1000 genomes]
rs987477	0.88[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	esv3481417	chr8:85279453-86145229	Active TSS Weak transcription Flanking Active TSS Enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	esv3481418	chr8:85279453-86145229	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv427823	chr8:85538522-86009068	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv428203	chr8:85834033-86009068	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs17811680	C8orf59	cis	cerebellum	SCAN
rs17811680	CA13	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:85890400-85893200	Weak transcription	Primary monocytes fromperipheralblood	blood
2	chr8:85890400-85894600	Weak transcription	Monocytes-CD14+_RO01746	blood

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