Variant report

Variant	rs17107513
Chromosome Location	chr14:78873901-78873902
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10134094	0.87[GIH][hapmap]
rs17107497	0.87[GIH][hapmap]
rs17107503	1.00[CEU][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17107504	1.00[CEU][hapmap];0.86[CHB][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17107533	0.85[GIH][hapmap]
rs17107535	1.00[CEU][hapmap];0.89[YRI][hapmap];0.83[AMR][1000 genomes]
rs17107884	1.00[JPT][hapmap]
rs2110422	0.87[GIH][hapmap]
rs2110425	1.00[JPT][hapmap]
rs3759727	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7150932	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.97[EUR][1000 genomes]
rs8007529	1.00[CEU][hapmap]
rs8008709	0.80[YRI][hapmap]
rs8013226	1.00[JPT][hapmap]

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	nsv832837	chr14:78766805-78946526	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17107513	ALDH6A1	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:78869400-78875000	Active TSS	GM12878-XiMat	blood
2	chr14:78871200-78874400	Enhancers	Brain Substantia Nigra	brain
3	chr14:78872600-78874200	Enhancers	Brain Cingulate Gyrus	brain
4	chr14:78873200-78874200	Enhancers	Brain Hippocampus Middle	brain
5	chr14:78873400-78880600	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr14:78873400-78881400	Weak transcription	Brain Anterior Caudate	brain
7	chr14:78873600-78876600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr14:78873600-78880600	Weak transcription	Brain Angular Gyrus	brain

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Input of quick search could be:

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

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