Variant report

Variant	rs3823064
Chromosome Location	chr6:69681617-69681618
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs1006997	0.81[CHB][hapmap];0.91[JPT][hapmap]
rs1336641	1.00[JPT][hapmap];0.84[YRI][hapmap];0.90[ASN][1000 genomes]
rs1336645	0.90[CHD][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.84[YRI][hapmap];0.90[ASN][1000 genomes]
rs1336646	0.84[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs1336647	0.86[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.90[ASN][1000 genomes]
rs1336648	0.91[JPT][hapmap]
rs1336649	0.90[ASN][1000 genomes]
rs1336650	0.87[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs1415030	0.86[JPT][hapmap]
rs1415031	0.82[CEU][hapmap]
rs1556754	0.81[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.83[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs1556755	0.80[AFR][1000 genomes]
rs1932774	0.87[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.95[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs1999787	0.86[JPT][hapmap]
rs1999788	0.90[ASN][1000 genomes]
rs2860121	0.86[JPT][hapmap]
rs2880587	1.00[JPT][hapmap]
rs2880588	0.97[ASN][1000 genomes]
rs3798969	0.83[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs3798974	1.00[JPT][hapmap]
rs3798977	0.82[CEU][hapmap]
rs3798979	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3798983	0.82[JPT][hapmap]
rs3798988	0.84[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs3798991	1.00[JPT][hapmap];0.96[YRI][hapmap];0.83[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs3798992	0.87[CHD][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.84[YRI][hapmap];0.89[ASN][1000 genomes]
rs3798993	0.87[CHD][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.84[YRI][hapmap];0.90[ASN][1000 genomes]
rs6899467	0.86[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.82[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs7757025	0.82[JPT][hapmap]
rs9354812	0.86[JPT][hapmap]
rs9446079	0.97[ASN][1000 genomes]
rs9454661	0.87[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs945528	0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv5338	chr6:69670701-69701360	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3823064	C6orf57	cis	parietal	SCAN

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:69646000-69685000	Weak transcription	Fetal Lung	lung
2	chr6:69652200-69684600	Weak transcription	Brain Angular Gyrus	brain
3	chr6:69670200-69685000	Weak transcription	Brain Germinal Matrix	brain
4	chr6:69678200-69684600	Weak transcription	Brain Anterior Caudate	brain
5	chr6:69678200-69684600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr6:69678400-69684600	Weak transcription	Brain Cingulate Gyrus	brain
7	chr6:69681000-69684200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr6:69681600-69682800	Strong transcription	Cortex derived primary cultured neurospheres	brain

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