Variant report

Variant	rs9344674
Chromosome Location	chr6:87802423-87802424
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 8 )

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

rs_ID	r²[population]
rs1983841	0.84[CEU][hapmap];0.82[EUR][1000 genomes]
rs2011192	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2025486	0.85[CEU][hapmap];0.82[EUR][1000 genomes]
rs3828759	0.85[CEU][hapmap]
rs4706287	0.81[CEU][hapmap]
rs6926846	0.94[ASW][hapmap];0.85[CEU][hapmap];0.82[EUR][1000 genomes]
rs7751610	0.82[EUR][1000 genomes]
rs7759783	0.88[AFR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9342104	0.81[CEU][hapmap];0.82[EUR][1000 genomes]
rs9344673	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9444470	0.89[ASW][hapmap];0.85[CEU][hapmap];0.83[EUR][1000 genomes]
rs9444471	0.80[EUR][1000 genomes]
rs981086	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs981087	0.85[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.85[TSI][hapmap];0.86[EUR][1000 genomes];0.96[ASN][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	nsv1024751	chr6:87433199-87908721	Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv5385	chr6:87781015-87803663	Enhancers Weak transcription Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:8)

SNP	Gene	Cis/trans	Tissue	Source
rs9344674	C6orf165	cis	parietal	SCAN
rs9344674	NFIC	trans	cerebellum	SCAN
rs9344674	C6orf162	cis	parietal	SCAN
rs9344674	SLC35A1	cis	multi-tissue	Pritchard
rs9344674	C6orf162	Cis_1M	lymphoblastoid	RTeQTL
rs9344674	SNORD50A	cis	cerebellum	SCAN
rs9344674	C6orf162	cis	cerebellum	SCAN
rs9344674	SLC35A1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:87801400-87804800	Active TSS	Placenta	Placenta
2	chr6:87801400-87805000	Active TSS	Hela-S3	cervix

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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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