Variant report

Variant	rs686110
Chromosome Location	chr12:45114844-45114845
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10748401	1.00[CEU][hapmap];0.86[CHD][hapmap];0.87[JPT][hapmap];0.88[MEX][hapmap];0.93[MKK][hapmap];0.97[TSI][hapmap];0.80[YRI][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10748402	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10785518	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10785520	0.82[ASW][hapmap];1.00[CEU][hapmap];0.88[CHD][hapmap];0.82[JPT][hapmap];0.88[MEX][hapmap];0.97[TSI][hapmap];0.80[YRI][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10785521	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10785522	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10785523	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10785524	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10785525	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10785526	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10785527	1.00[CEU][hapmap];0.86[CHD][hapmap];0.87[JPT][hapmap];0.88[MEX][hapmap];0.94[MKK][hapmap];0.97[TSI][hapmap];0.80[YRI][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10880665	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10880667	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10880668	1.00[CEU][hapmap];0.83[MEX][hapmap];0.97[TSI][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10880669	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10880670	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10880671	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10880672	1.00[CEU][hapmap];0.83[MEX][hapmap];0.97[TSI][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10880674	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10880675	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10880676	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11182562	0.86[CHB][hapmap];0.91[JPT][hapmap]
rs12302273	0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12829763	0.86[ASN][1000 genomes]
rs1450540	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1450551	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1470803	0.82[ASW][hapmap];0.88[CEU][hapmap]
rs17094882	0.88[ASW][hapmap];1.00[CEU][hapmap];0.86[CHB][hapmap];0.89[CHD][hapmap];0.81[GIH][hapmap];0.91[JPT][hapmap];0.84[MEX][hapmap];0.87[MKK][hapmap];0.97[TSI][hapmap]
rs1711839	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2060898	0.88[CEU][hapmap]
rs2060899	0.88[CEU][hapmap]
rs2084614	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2218943	0.88[ASW][hapmap];1.00[CEU][hapmap];0.86[CHB][hapmap];0.91[CHD][hapmap];0.86[GIH][hapmap];0.95[JPT][hapmap];0.84[MEX][hapmap];0.84[MKK][hapmap];0.97[TSI][hapmap]
rs2408047	1.00[ASW][hapmap];0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.85[JPT][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2408048	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3858729	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4768569	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs586188	1.00[CEU][hapmap];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs590905	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs617006	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs625691	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs632893	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs633526	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.80[LWK][hapmap];0.83[MEX][hapmap];0.95[MKK][hapmap];0.97[TSI][hapmap];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs641782	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];0.91[JPT][hapmap];1.00[LWK][hapmap];0.92[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs655191	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6582514	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6582515	1.00[CEU][hapmap];0.80[YRI][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs683285	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7299592	0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7304431	0.82[ASW][hapmap];0.88[CEU][hapmap];0.87[MKK][hapmap]
rs838975	0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049818	chr12:44486312-45133783	Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	esv3378050	chr12:44963059-45264289	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv832394	chr12:45077573-45269305	Bivalent Enhancer Active TSS Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
4	nsv1049080	chr12:45097564-45195295	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:45065000-45116000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr12:45080800-45136000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr12:45081400-45115600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
4	chr12:45105200-45117000	Weak transcription	Primary T helper cells fromperipheralblood	blood
5	chr12:45111800-45120000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr12:45113400-45115400	Weak transcription	Fetal Brain Male	brain
7	chr12:45114000-45115000	Enhancers	iPS-18 Cell Line	embryonic stem cell
8	chr12:45114200-45115000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
9	chr12:45114600-45115000	Enhancers	Fetal Brain Female	brain
10	chr12:45114600-45116400	Enhancers	Fetal Heart	heart
11	chr12:45114800-45115600	Weak transcription	Primary T helper cells PMA-I stimulated	--
12	chr12:45114800-45117800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links