Variant report

Variant	rs2465845
Chromosome Location	chr6:161324856-161324857
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs1247293	0.87[ASN][1000 genomes]
rs1247295	0.87[ASN][1000 genomes]
rs1247297	0.80[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1247301	0.83[CEU][hapmap];0.86[CHB][hapmap];0.87[JPT][hapmap];0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1247303	0.83[CEU][hapmap];0.86[CHB][hapmap];0.87[JPT][hapmap];0.86[ASN][1000 genomes]
rs1247311	0.86[CHB][hapmap];0.85[ASN][1000 genomes]
rs1247354	0.81[AMR][1000 genomes]
rs1247356	0.82[CHB][hapmap];0.82[JPT][hapmap]
rs1247359	0.86[CHB][hapmap];0.95[CHD][hapmap];0.87[JPT][hapmap];0.87[ASN][1000 genomes]
rs1937467	0.94[ASN][1000 genomes]
rs1937475	0.85[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2248982	0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs2489957	0.95[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2489959	0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs935184	0.87[ASN][1000 genomes]
rs9365233	0.82[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.86[AMR][1000 genomes];0.99[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	nsv830853	chr6:161180005-161376481	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	esv2422347	chr6:161211171-161442377	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2465845	SNORA29	cis	cerebellum	SCAN
rs2465845	QKI	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:161321200-161336600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr6:161324200-161325000	Enhancers	iPS-20b Cell Line	embryonic stem cell
3	chr6:161324800-161330000	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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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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