Variant report

Variant	rs12466900
Chromosome Location	chr2:125365438-125365439
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10165603	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap]
rs10184472	0.82[CEU][hapmap]
rs10194805	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10195187	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10196022	0.81[CEU][hapmap]
rs10202736	0.91[GIH][hapmap]
rs10206545	0.82[CEU][hapmap]
rs11123053	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[MKK][hapmap];0.89[YRI][hapmap]
rs11674701	0.89[GIH][hapmap]
rs11681388	0.92[CHB][hapmap];1.00[JPT][hapmap]
rs11686268	0.84[CEU][hapmap]
rs12468779	0.92[CHB][hapmap];0.94[JPT][hapmap]
rs12470391	1.00[CHB][hapmap];0.94[JPT][hapmap];0.98[ASN][1000 genomes]
rs12477053	1.00[ASN][1000 genomes]
rs12990799	1.00[CHB][hapmap];0.94[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs1394141	0.82[CEU][hapmap]
rs1394142	0.85[CEU][hapmap]
rs1394143	0.82[CEU][hapmap]
rs1454133	0.86[GIH][hapmap]
rs1504015	0.91[GIH][hapmap]
rs1504022	0.80[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[ASN][1000 genomes]
rs1504023	0.82[ASW][hapmap];0.91[GIH][hapmap]
rs1587789	0.91[GIH][hapmap]
rs1847432	1.00[ASN][1000 genomes]
rs1902004	0.86[GIH][hapmap]
rs1910528	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2047874	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs4848249	0.86[GIH][hapmap]
rs4848250	0.86[GIH][hapmap]
rs4848251	0.82[CEU][hapmap]
rs4848950	0.91[GIH][hapmap]
rs6541962	0.96[CEU][hapmap]
rs6541966	0.91[GIH][hapmap]
rs6712020	0.89[GIH][hapmap]
rs6720324	0.82[CEU][hapmap]
rs6721614	0.89[GIH][hapmap]
rs6745271	0.82[CEU][hapmap]
rs6750396	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs727179	0.82[CEU][hapmap]
rs727180	0.81[CEU][hapmap]
rs7558706	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7560341	0.82[CEU][hapmap];0.91[GIH][hapmap]
rs7564755	0.82[CEU][hapmap]
rs7578835	0.81[CEU][hapmap];0.81[JPT][hapmap]
rs7584599	0.82[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[TSI][hapmap]
rs7586683	0.82[CEU][hapmap]
rs7591540	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7605511	0.85[CEU][hapmap]
rs924802	0.82[CEU][hapmap];0.91[GIH][hapmap]
rs963190	0.86[GIH][hapmap]
rs9646915	0.82[CEU][hapmap];0.91[GIH][hapmap]
rs9646916	0.82[CEU][hapmap];0.91[GIH][hapmap]

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	nsv834357	chr2:125258157-125421507	Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
2	nsv528674	chr2:125346337-125383522	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:125365000-125365600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr2:125365000-125365600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
3	chr2:125365000-125365600	Bivalent Enhancer	HepG2	liver
4	chr2:125365200-125365600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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