Variant report

Variant	rs3798971
Chromosome Location	chr6:69672039-69672040
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs12665384	0.91[CHB][hapmap];0.85[CHD][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs12665411	0.91[CHB][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs1336654	0.87[JPT][hapmap]
rs1415032	0.90[CHB][hapmap];0.90[JPT][hapmap];0.84[ASN][1000 genomes]
rs1953614	0.85[ASN][1000 genomes]
rs2880587	0.97[GIH][hapmap];0.96[MEX][hapmap];0.95[TSI][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3757043	0.90[CEU][hapmap]
rs3757049	0.86[JPT][hapmap]
rs3798974	0.97[GIH][hapmap];0.96[MEX][hapmap];0.95[TSI][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3798982	0.82[CHB][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs3798983	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs3798990	0.84[CHB][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs3798995	0.83[CHD][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs3798997	0.86[JPT][hapmap]
rs3799019	0.87[JPT][hapmap]
rs72906776	0.85[ASN][1000 genomes]
rs9360368	0.90[CEU][hapmap]
rs9360369	0.86[JPT][hapmap]
rs960991	0.85[CHB][hapmap];0.95[JPT][hapmap];0.85[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

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:69645600-69679000	Weak transcription	Fetal Brain Female	brain
2	chr6:69646000-69685000	Weak transcription	Fetal Lung	lung
3	chr6:69646200-69677200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr6:69647600-69677800	Weak transcription	Brain Anterior Caudate	brain
5	chr6:69652200-69684600	Weak transcription	Brain Angular Gyrus	brain
6	chr6:69652800-69672800	Weak transcription	Fetal Brain Male	brain
7	chr6:69654400-69677600	Weak transcription	Brain Hippocampus Middle	brain
8	chr6:69655000-69677600	Weak transcription	Brain Substantia Nigra	brain
9	chr6:69666600-69677800	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr6:69666800-69672800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr6:69667600-69672200	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr6:69668000-69675000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr6:69670200-69685000	Weak transcription	Brain Germinal Matrix	brain

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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