Variant report

Variant	rs3740868
Chromosome Location	chr11:94113466-94113467
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10501815	0.88[CHB][hapmap];0.89[GIH][hapmap];0.91[JPT][hapmap];0.90[TSI][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10765682	0.88[CHB][hapmap];0.89[GIH][hapmap];0.91[JPT][hapmap];1.00[TSI][hapmap];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10831219	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10831223	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10831224	0.91[JPT][hapmap];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10831228	0.88[CHB][hapmap];0.91[JPT][hapmap];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10831229	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10831230	0.88[CHB][hapmap];0.91[JPT][hapmap];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10831232	0.88[CHB][hapmap];0.91[JPT][hapmap];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10831234	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10831235	0.88[CHB][hapmap];0.82[JPT][hapmap];0.89[MEX][hapmap];0.80[ASN][1000 genomes]
rs11020768	0.93[GIH][hapmap];0.91[JPT][hapmap];1.00[TSI][hapmap];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11020773	0.88[CHB][hapmap];0.89[GIH][hapmap];0.91[JPT][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11020778	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11020779	0.89[JPT][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11020780	0.88[CHB][hapmap];0.91[JPT][hapmap];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11020789	0.88[CHB][hapmap];0.91[JPT][hapmap];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11020798	0.88[CHB][hapmap];0.88[JPT][hapmap]
rs11020805	0.80[ASN][1000 genomes]
rs11020806	0.80[ASN][1000 genomes]
rs11020808	0.88[CHB][hapmap];0.82[JPT][hapmap]
rs11517521	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11528970	1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11605546	0.88[CHB][hapmap];0.82[JPT][hapmap]
rs11825497	0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12222194	0.86[CHB][hapmap];0.90[JPT][hapmap];0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12222920	0.88[CHB][hapmap];0.91[JPT][hapmap];1.00[TSI][hapmap];0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12224897	0.88[CHB][hapmap];0.91[JPT][hapmap];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12360807	0.81[EUR][1000 genomes]
rs12360870	0.91[JPT][hapmap];0.84[EUR][1000 genomes]
rs12365123	0.90[EUR][1000 genomes]
rs12804797	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13447710	0.91[JPT][hapmap];0.83[EUR][1000 genomes]
rs13447717	0.88[CHB][hapmap];0.91[JPT][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13447719	0.82[JPT][hapmap]
rs2005496	0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs28817619	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs35311697	0.84[AFR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3819119	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7117042	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7126861	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7126985	0.88[CHB][hapmap];0.89[GIH][hapmap];0.91[JPT][hapmap];1.00[TSI][hapmap];0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7947058	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv523083	chr11:93962121-94150790	Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv832233	chr11:93981434-94158471	Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3740868	SCARNA9	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:94112000-94114400	Weak transcription	Brain Angular Gyrus	brain

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