Variant report

Variant	rs12474491
Chromosome Location	chr2:142536317-142536318
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs1008830	0.85[CHB][hapmap];0.83[JPT][hapmap]
rs1009398	0.85[CEU][hapmap]
rs10165118	0.90[CHB][hapmap];0.82[JPT][hapmap]
rs10193397	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs10195141	1.00[CHB][hapmap];0.82[ASN][1000 genomes]
rs10496896	0.85[CEU][hapmap];0.91[MEX][hapmap];0.81[TSI][hapmap];0.82[AMR][1000 genomes]
rs10496897	1.00[CHB][hapmap];0.88[CHD][hapmap]
rs10928123	1.00[CHB][hapmap]
rs12474567	1.00[CHB][hapmap];0.91[CHD][hapmap];0.83[JPT][hapmap];0.83[ASN][1000 genomes]
rs12612082	1.00[CHB][hapmap];0.88[CHD][hapmap];0.83[JPT][hapmap]
rs12616665	1.00[CHB][hapmap];0.89[CHD][hapmap];0.83[JPT][hapmap]
rs12990449	1.00[CHB][hapmap];0.82[JPT][hapmap]
rs13412865	0.96[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.95[MEX][hapmap];0.98[TSI][hapmap]
rs16847091	1.00[CHB][hapmap];0.83[JPT][hapmap];0.81[ASN][1000 genomes]
rs16847244	0.95[CHB][hapmap]
rs16847247	0.95[CHB][hapmap];0.91[JPT][hapmap]
rs1866025	0.82[ASN][1000 genomes]
rs1866026	0.95[CHB][hapmap];0.83[CHD][hapmap]
rs1866027	0.95[CHB][hapmap]
rs1876595	0.85[CEU][hapmap];0.91[MEX][hapmap];0.82[TSI][hapmap]
rs2009269	0.82[ASN][1000 genomes]
rs2009270	0.82[ASN][1000 genomes]
rs2048206	0.86[JPT][hapmap]
rs2196597	0.85[CEU][hapmap]
rs2217964	0.90[CHB][hapmap];1.00[CHD][hapmap];0.90[JPT][hapmap]
rs2217965	1.00[CHB][hapmap];0.83[JPT][hapmap]
rs2890600	0.95[CHB][hapmap]
rs34527764	1.00[CHB][hapmap];0.89[CHD][hapmap];0.83[JPT][hapmap]
rs3856362	1.00[CHB][hapmap];0.81[JPT][hapmap]
rs4622655	1.00[CHB][hapmap];0.89[CHD][hapmap];0.83[JPT][hapmap]
rs4954923	1.00[CHB][hapmap];0.91[CHD][hapmap];0.83[JPT][hapmap];0.82[ASN][1000 genomes]
rs6759610	1.00[CHB][hapmap];0.83[JPT][hapmap]
rs7425972	1.00[CHB][hapmap];0.91[CHD][hapmap];0.83[JPT][hapmap]
rs972485	1.00[CHB][hapmap];0.88[CHD][hapmap];0.82[JPT][hapmap]
rs974973	1.00[CHB][hapmap];0.89[CHD][hapmap]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834394	chr2:142430225-142593264	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv530398	chr2:142474842-142843839	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv459663	chr2:142509570-142568465	Weak transcription Enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
4	nsv583236	chr2:142509570-142568465	Weak transcription Enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
5	nsv1004379	chr2:142514657-142547597	Weak transcription Enhancers Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
6	nsv875246	chr2:142527100-142568465	Weak transcription Enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
7	nsv875247	chr2:142527100-142569099	Enhancers Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
8	nsv875248	chr2:142527100-142572590	Enhancers Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
9	nsv875249	chr2:142527100-142614345	Enhancers Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:142536000-142536400	Flanking Active TSS	Dnd41	blood
2	chr2:142536200-142536400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain

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