Variant report

Variant	rs1860695
Chromosome Location	chr7:78734684-78734685
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs1013571	0.86[CHB][hapmap];0.88[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.90[ASN][1000 genomes]
rs1013572	0.83[GIH][hapmap]
rs1016189	0.81[CEU][hapmap];1.00[GIH][hapmap];0.92[TSI][hapmap];0.89[EUR][1000 genomes]
rs10253328	0.81[CHB][hapmap];0.88[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.81[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs11531591	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs11771071	0.89[CEU][hapmap];0.82[CHB][hapmap];0.90[JPT][hapmap];0.81[ASN][1000 genomes]
rs12674038	0.81[CEU][hapmap];0.87[CHB][hapmap];0.87[CHD][hapmap];1.00[GIH][hapmap];0.89[TSI][hapmap]
rs12705965	0.90[CEU][hapmap];0.81[GIH][hapmap];0.84[JPT][hapmap];0.85[MEX][hapmap]
rs13243641	0.81[CEU][hapmap];0.87[CHB][hapmap];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13247319	0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs1988318	0.90[CEU][hapmap];0.86[CHB][hapmap];0.95[JPT][hapmap]
rs2041484	0.86[CHB][hapmap];0.88[CHD][hapmap];0.83[GIH][hapmap];0.95[JPT][hapmap];0.90[MEX][hapmap];0.90[ASN][1000 genomes]
rs2041487	0.87[CHB][hapmap];0.87[TSI][hapmap]
rs2159685	0.86[CHB][hapmap];0.86[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2191719	0.83[GIH][hapmap];0.90[JPT][hapmap];0.85[MEX][hapmap]
rs2191721	0.86[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2191723	0.89[EUR][1000 genomes]
rs2191806	0.81[CEU][hapmap];0.98[GIH][hapmap];0.89[TSI][hapmap];0.89[EUR][1000 genomes]
rs2215543	0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2215544	0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2215581	0.85[CEU][hapmap];0.89[EUR][1000 genomes]
rs2364341	0.84[JPT][hapmap]
rs2886053	0.98[GIH][hapmap];0.87[TSI][hapmap]
rs61324116	0.90[ASN][1000 genomes]
rs6466491	0.82[CHB][hapmap];0.86[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.81[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs6942475	0.86[CHB][hapmap];0.88[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap]
rs6959534	0.88[EUR][1000 genomes]
rs6977105	0.85[GIH][hapmap]
rs73143433	0.90[ASN][1000 genomes]
rs7789445	0.86[CHB][hapmap];0.88[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap]
rs7790562	0.81[CEU][hapmap];0.87[CHB][hapmap];0.87[CHD][hapmap];1.00[GIH][hapmap];0.89[TSI][hapmap];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7794889	0.86[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs7796560	0.98[EUR][1000 genomes]
rs7810534	0.84[CEU][hapmap]

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	nsv464598	chr7:78492642-79483480	Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
2	nsv607659	chr7:78492642-79483480	Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
3	nsv1029799	chr7:78608097-79061737	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv831040	chr7:78623195-78831998	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1860695	STYXL1	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:78734600-78735200	Enhancers	Brain Hippocampus Middle	brain

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