Variant report

Variant	rs289871
Chromosome Location	chr2:152065396-152065397
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs1040234	0.89[CEU][hapmap];0.88[EUR][1000 genomes]
rs1040235	0.88[CEU][hapmap];0.88[EUR][1000 genomes]
rs11690634	0.89[EUR][1000 genomes]
rs11691481	0.84[EUR][1000 genomes]
rs12469634	0.89[CEU][hapmap];0.84[EUR][1000 genomes]
rs12994801	0.89[EUR][1000 genomes]
rs13005624	0.84[EUR][1000 genomes]
rs13029661	0.89[EUR][1000 genomes]
rs1518687	0.89[EUR][1000 genomes]
rs17182313	0.84[EUR][1000 genomes]
rs17796622	0.89[CEU][hapmap];0.84[EUR][1000 genomes]
rs17797018	0.89[EUR][1000 genomes]
rs1868920	0.88[EUR][1000 genomes]
rs2084744	0.85[EUR][1000 genomes]
rs2278089	0.90[CHB][hapmap]
rs289828	0.88[CHB][hapmap]
rs289858	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs289862	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs289904	0.86[ASN][1000 genomes]
rs289905	0.86[ASN][1000 genomes]
rs289907	0.86[ASN][1000 genomes]
rs289921	0.86[ASN][1000 genomes]
rs34132424	0.85[CHB][hapmap]
rs34276187	0.87[EUR][1000 genomes]
rs35052957	0.84[EUR][1000 genomes]
rs387297	0.90[CHB][hapmap]
rs4664280	0.89[EUR][1000 genomes]
rs4665028	0.87[EUR][1000 genomes]
rs4665051	0.89[EUR][1000 genomes]
rs6433273	0.84[EUR][1000 genomes]
rs6433327	0.82[GIH][hapmap];0.86[MEX][hapmap]
rs6705511	0.89[CEU][hapmap]
rs6708382	0.82[GIH][hapmap];0.86[MEX][hapmap]
rs6726634	0.82[GIH][hapmap];0.86[MEX][hapmap]
rs67403347	0.90[EUR][1000 genomes]
rs67788715	0.89[EUR][1000 genomes]
rs7589420	0.89[CEU][hapmap];0.88[EUR][1000 genomes]
rs9287955	0.82[MEX][hapmap]
rs958525	0.89[EUR][1000 genomes]
rs9646784	0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv523849	chr2:151718133-152143524	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	esv3693426	chr2:151725792-152295862	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv834417	chr2:151980473-152154950	Enhancers Flanking Active TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv1014936	chr2:152019809-152118479	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
5	nsv1012891	chr2:152019809-152306897	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
6	nsv1013484	chr2:152028515-152473913	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
7	nsv535983	chr2:152028515-152473913	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	24 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs289871	ARL5A	cis	cerebellum	SCAN
rs289871	TNFAIP6	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:152064800-152065600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung

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