Variant report

Variant	rs779456
Chromosome Location	chr6:69953714-69953715
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs1083694	0.94[CEU][hapmap];0.95[TSI][hapmap];0.92[EUR][1000 genomes]
rs11965487	1.00[GIH][hapmap]
rs16900620	0.91[GIH][hapmap]
rs2050918	0.94[CEU][hapmap];0.90[EUR][1000 genomes]
rs314198	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs314214	0.94[CEU][hapmap];0.93[EUR][1000 genomes]
rs701653	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs701654	0.94[CEU][hapmap];0.95[EUR][1000 genomes]
rs728299	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs779462	1.00[GIH][hapmap]
rs779464	1.00[CEU][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs779466	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs779467	1.00[GIH][hapmap]
rs779468	0.95[EUR][1000 genomes]
rs779471	0.95[EUR][1000 genomes]
rs779473	1.00[CEU][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs779481	0.84[CEU][hapmap];0.95[TSI][hapmap]
rs779489	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9454720	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv886137	chr6:69684850-70095690	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv432919	chr6:69873179-70221322	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs779456	NT5E	trans	lymphoblastoid	seeQTL

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:69945600-69954400	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr6:69946200-69960400	Weak transcription	Brain Anterior Caudate	brain
3	chr6:69948600-69970200	Weak transcription	Cortex derived primary cultured neurospheres	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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