Variant report

Variant	rs660788
Chromosome Location	chr11:56243273-56243274
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 83 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:79)

rs_ID	r²[population]
rs10791952	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10791961	1.00[CHB][hapmap];0.92[JPT][hapmap]
rs10896227	0.91[ASN][1000 genomes]
rs10896290	1.00[CHB][hapmap];0.95[CHD][hapmap];0.92[JPT][hapmap]
rs10896325	0.96[ASN][1000 genomes]
rs10896345	0.96[ASN][1000 genomes]
rs10896484	0.82[CEU][hapmap];0.81[CHB][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap]
rs10896486	0.80[CEU][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap]
rs10896488	1.00[ASW][hapmap];0.82[CEU][hapmap];0.81[CHB][hapmap];0.89[GIH][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap]
rs10896494	0.84[ASW][hapmap];0.90[CHB][hapmap];0.81[GIH][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap]
rs10896495	0.81[CHB][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap]
rs11227964	0.88[ASN][1000 genomes]
rs11228647	0.82[CEU][hapmap];0.81[CHB][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap]
rs11228675	0.82[CEU][hapmap];0.82[CHB][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap]
rs11228685	0.81[CHB][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap]
rs11228697	0.85[JPT][hapmap];1.00[YRI][hapmap]
rs11228717	0.81[CHB][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap]
rs12225008	0.82[CEU][hapmap];0.81[CHB][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap]
rs12272403	1.00[CHB][hapmap];0.95[CHD][hapmap];0.92[JPT][hapmap]
rs12277883	0.96[ASN][1000 genomes]
rs12285921	0.93[ASN][1000 genomes]
rs12291978	1.00[CHB][hapmap];0.92[JPT][hapmap]
rs12365813	0.81[CHB][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap]
rs12786642	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1397054	1.00[ASW][hapmap];0.82[CEU][hapmap];0.85[GIH][hapmap];1.00[YRI][hapmap]
rs1510004	0.81[CEU][hapmap];0.81[CHB][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap]
rs1573512	0.96[ASN][1000 genomes]
rs1905055	1.00[CHB][hapmap];0.95[CHD][hapmap];0.92[JPT][hapmap]
rs1945228	0.96[ASN][1000 genomes]
rs2128132	0.93[ASN][1000 genomes]
rs2220001	0.91[ASN][1000 genomes]
rs34434887	0.96[ASN][1000 genomes]
rs4420287	0.96[ASN][1000 genomes]
rs4938829	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4938835	0.82[CEU][hapmap];0.81[CHB][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap]
rs4939033	0.84[ASN][1000 genomes]
rs4939037	0.96[ASN][1000 genomes]
rs4939046	1.00[CHB][hapmap];0.95[CHD][hapmap];0.92[JPT][hapmap]
rs4939054	0.96[ASN][1000 genomes]
rs594113	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs594568	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs597016	0.89[ASN][1000 genomes]
rs597031	0.86[ASN][1000 genomes]
rs597045	0.89[ASN][1000 genomes]
rs597102	1.00[ASN][1000 genomes]
rs605734	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs610822	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs611459	1.00[ASW][hapmap];0.82[CEU][hapmap];0.81[CHB][hapmap];0.89[GIH][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap]
rs612885	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs615231	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs621826	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs624412	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs634955	0.97[ASN][1000 genomes]
rs637202	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs638801	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs639419	0.89[ASN][1000 genomes]
rs640953	0.83[JPT][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs647027	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs647058	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs647402	0.97[ASN][1000 genomes]
rs652537	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[ASN][1000 genomes]
rs6591233	0.93[ASN][1000 genomes]
rs6591310	0.96[ASN][1000 genomes]
rs663964	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs669453	0.99[ASN][1000 genomes]
rs672711	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs675120	1.00[ASN][1000 genomes]
rs675991	1.00[ASW][hapmap];0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs680490	0.97[ASN][1000 genomes]
rs683539	1.00[ASN][1000 genomes]
rs7105808	0.96[ASN][1000 genomes]
rs7116573	0.96[ASN][1000 genomes]
rs7126732	0.96[ASN][1000 genomes]
rs7131637	0.95[ASN][1000 genomes]
rs7930678	1.00[CHB][hapmap];0.95[CHD][hapmap];0.92[JPT][hapmap]
rs7931261	1.00[CHB][hapmap];0.95[CHD][hapmap];0.92[JPT][hapmap]
rs7933772	0.89[CHB][hapmap];0.92[JPT][hapmap]
rs7940239	0.93[ASN][1000 genomes]
rs871301	0.96[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	nsv1050024	chr11:55900482-56518943	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	52 gene(s)	inside rSNPs	diseases
2	nsv497854	chr11:55917298-56537994	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	50 gene(s)	inside rSNPs	diseases
3	nsv971949	chr11:56126625-56344170	Enhancers Weak transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	18 gene(s)	inside rSNPs	diseases
4	nsv1046487	chr11:56228761-56310644	Enhancers Weak transcription	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs660788	OR8H3	cis	cerebellum	SCAN
rs660788	DTX4	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:56241400-56243600	Enhancers	Fetal Intestine Large	intestine
2	chr11:56241800-56243600	Enhancers	Fetal Intestine Small	intestine

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