Variant report

Variant	rs13169624
Chromosome Location	chr5:108071916-108071917
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs11240983	1.00[CHB][hapmap];0.88[EUR][1000 genomes]
rs11741158	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12152902	1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs12153447	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12153449	1.00[CHB][hapmap];0.88[EUR][1000 genomes]
rs12153549	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12188386	1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs13154354	0.88[EUR][1000 genomes]
rs13174528	1.00[YRI][hapmap]
rs13181901	1.00[YRI][hapmap]
rs13184924	1.00[ASW][hapmap];1.00[CHB][hapmap];0.81[GIH][hapmap];1.00[LWK][hapmap];0.85[MKK][hapmap];0.80[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs34263420	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs34505415	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34989254	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs36047276	1.00[YRI][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	nsv882689	chr5:107595383-108299744	Enhancers ZNF genes & repeats Active TSS Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs13169624	APC	cis	parietal	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:108066600-108082600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr5:108071400-108072000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
3	chr5:108071400-108072000	Active TSS	Pancreatic Islets	Pancreatic Islet
4	chr5:108071600-108072000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr5:108071600-108072000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr5:108071800-108072000	Enhancers	HUVEC	blood vessel
7	chr5:108071800-108072800	Enhancers	K562	blood

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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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