Variant report

Variant	rs12642442
Chromosome Location	chr4:173684873-173684874
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 125 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:122)

rs_ID	r²[population]
rs10000589	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10025150	0.88[CEU][hapmap];0.85[CHB][hapmap]
rs10025544	0.85[CEU][hapmap];0.85[CHB][hapmap]
rs10029787	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10031656	0.89[CEU][hapmap];0.85[CHB][hapmap]
rs10034980	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10034993	0.89[CEU][hapmap];0.85[CHB][hapmap]
rs10866355	0.83[AMR][1000 genomes]
rs10866356	0.82[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap]
rs10866357	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10866358	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10866359	0.90[EUR][1000 genomes]
rs10866361	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10866362	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10866363	0.88[CEU][hapmap];0.85[CHB][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10866364	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10866365	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1106651	0.82[AMR][1000 genomes]
rs11132955	0.82[MEX][hapmap]
rs11132959	0.88[JPT][hapmap]
rs11132964	0.89[CEU][hapmap];0.85[CHB][hapmap];0.86[CHD][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11132965	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11132966	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11132967	0.89[CEU][hapmap];0.85[CHB][hapmap];0.86[CHD][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11132968	0.87[CEU][hapmap];0.80[CHB][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11132969	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11132970	0.89[CEU][hapmap];0.85[CHB][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1158684	0.82[CHD][hapmap];0.89[GIH][hapmap];0.83[JPT][hapmap];0.83[MEX][hapmap];0.82[TSI][hapmap]
rs11722378	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11725400	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11932974	0.81[CHD][hapmap]
rs11938551	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.96[TSI][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11939302	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11942645	0.89[CEU][hapmap];0.85[CHB][hapmap];0.86[CHD][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12498347	0.89[CEU][hapmap];0.84[CHB][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12501331	0.82[AMR][1000 genomes]
rs12501554	0.81[CEU][hapmap];0.85[CHB][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12502339	0.85[CEU][hapmap];0.85[CHB][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12509744	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12643742	0.88[CEU][hapmap];0.85[CHB][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12645440	0.81[CHD][hapmap]
rs12647340	0.81[CEU][hapmap];0.82[CHD][hapmap];0.86[GIH][hapmap];0.83[MEX][hapmap];0.84[TSI][hapmap]
rs12649426	0.81[CEU][hapmap];0.82[CHD][hapmap];0.86[GIH][hapmap];0.83[MEX][hapmap];0.82[TSI][hapmap]
rs13107045	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13134194	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13144747	0.89[CEU][hapmap];0.85[CHB][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13146563	0.85[CEU][hapmap]
rs1347700	0.81[CEU][hapmap];0.82[CHD][hapmap];0.91[GIH][hapmap];0.83[MEX][hapmap];0.82[TSI][hapmap]
rs1347705	0.92[CEU][hapmap];0.85[CHB][hapmap];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1347706	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1370581	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1437834	0.84[CEU][hapmap]
rs1437837	0.84[JPT][hapmap]
rs1437842	0.81[GIH][hapmap];0.83[MEX][hapmap];0.80[TSI][hapmap]
rs1540466	0.84[JPT][hapmap]
rs1540470	0.81[CEU][hapmap];0.84[CHD][hapmap];0.86[GIH][hapmap];0.83[MEX][hapmap];0.82[TSI][hapmap]
rs1548346	0.91[ASW][hapmap];1.00[CEU][hapmap];0.82[CHD][hapmap];0.95[GIH][hapmap];0.84[JPT][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1548347	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17058876	0.89[CEU][hapmap];0.85[CHB][hapmap];0.86[CHD][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17058878	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17307651	0.81[CHD][hapmap];0.80[TSI][hapmap]
rs17308839	0.81[AMR][1000 genomes]
rs2043782	0.89[CEU][hapmap];0.85[CHB][hapmap]
rs2043783	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2083133	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2083134	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2118439	0.83[JPT][hapmap];0.82[AMR][1000 genomes]
rs2118442	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs28436909	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs28550329	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34464405	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34567973	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34807167	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35184155	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35280724	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35345168	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4420960	0.88[CEU][hapmap];0.85[CHB][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4422401	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4431209	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4449390	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4470604	0.96[CEU][hapmap];0.83[JPT][hapmap]
rs4546224	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4569731	0.84[JPT][hapmap]
rs4608790	0.96[CEU][hapmap];0.88[JPT][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4695771	0.84[CHD][hapmap];0.84[GIH][hapmap];0.83[MEX][hapmap]
rs4695799	0.96[CEU][hapmap];0.83[JPT][hapmap]
rs4695817	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4696006	0.96[CEU][hapmap];0.84[JPT][hapmap]
rs4696015	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4696016	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4696022	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4696028	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56069434	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs59569156	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6553645	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6553657	0.89[CEU][hapmap];0.81[CHB][hapmap]
rs6553658	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs67786990	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6817631	0.89[CEU][hapmap];0.85[CHB][hapmap];0.86[CHD][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap]
rs6819441	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6819460	0.85[CHB][hapmap];0.86[CHD][hapmap];0.95[MEX][hapmap];0.87[TSI][hapmap];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6842382	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6842805	0.92[CEU][hapmap];0.83[CHB][hapmap]
rs6855645	0.84[CHD][hapmap];0.88[GIH][hapmap];0.83[MEX][hapmap]
rs7376615	0.89[CEU][hapmap];0.85[CHB][hapmap]
rs7378115	0.89[CEU][hapmap];0.85[CHB][hapmap]
rs7435993	0.90[EUR][1000 genomes]
rs7438724	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs748347	0.81[CEU][hapmap]
rs7659511	0.81[CEU][hapmap];0.84[CHD][hapmap];0.89[GIH][hapmap];0.83[MEX][hapmap];0.82[TSI][hapmap]
rs7661180	0.92[CEU][hapmap]
rs7672787	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7679802	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7681189	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.96[TSI][hapmap];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7685030	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7685421	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7688630	0.89[CEU][hapmap];0.85[CHB][hapmap]
rs7689021	0.92[CEU][hapmap]
rs7691448	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9312534	0.89[CEU][hapmap];0.86[CHD][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap]
rs9992822	0.89[CEU][hapmap];0.85[CHB][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9997085	0.89[CEU][hapmap];0.85[CHB][hapmap];0.86[CHD][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948856	chr4:173388217-173967546	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv949126	chr4:173466221-174051451	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	esv3327952	chr4:173591786-173805861	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:173684600-173685000	Enhancers	HUES48 Cell Line	embryonic stem cell
2	chr4:173684600-173685000	Enhancers	HUES64 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links