Variant report

Variant	rs280153
Chromosome Location	chr6:13945067-13945068
allele	G/T
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]
rs1192057	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs280152	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.85[MKK][hapmap];0.87[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs280154	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs280161	0.85[CEU][hapmap]
rs280169	0.91[CEU][hapmap];0.85[CHB][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs280172	0.85[CEU][hapmap]
rs280173	0.85[CEU][hapmap]
rs280176	0.85[CEU][hapmap]
rs280181	0.85[CEU][hapmap]
rs408909	0.82[YRI][hapmap]
rs4715723	0.85[CEU][hapmap]
rs579538	0.93[ASW][hapmap];0.85[CEU][hapmap];0.80[LWK][hapmap];0.85[MEX][hapmap]
rs7752108	0.85[CEU][hapmap]
rs7771397	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[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	nsv600995	chr6:13945067-14009231	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs280153	NAV2	trans	brain	seeQTL

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:13943000-13949400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr6:13943600-13945600	Enhancers	HUES48 Cell Line	embryonic stem cell
3	chr6:13944000-13945400	Enhancers	iPS-15b Cell Line	embryonic stem cell
4	chr6:13944600-13945400	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr6:13944800-13946600	Weak transcription	iPS-20b 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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