Variant report

Variant	rs17477820
Chromosome Location	chr6:69676346-69676347
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 4 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs16900396	1.00[LWK][hapmap]
rs17400036	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[AFR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56120605	1.00[AFR][1000 genomes];0.87[EUR][1000 genomes];1.00[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	chr6:69654400-69677600	Weak transcription	Brain Hippocampus Middle	brain
7	chr6:69655000-69677600	Weak transcription	Brain Substantia Nigra	brain
8	chr6:69666600-69677800	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr6:69670200-69685000	Weak transcription	Brain Germinal Matrix	brain
10	chr6:69673200-69680600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr6:69674000-69677800	Weak transcription	Brain Cingulate Gyrus	brain
12	chr6:69675000-69676400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr6:69675800-69681600	Weak transcription	Cortex derived primary cultured neurospheres	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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