Variant report

Variant	rs1548882
Chromosome Location	chr7:12286225-12286226
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs1019306	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1019307	0.84[CHB][hapmap];0.86[JPT][hapmap]
rs1019308	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1020005	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1042949	0.94[CHB][hapmap];0.95[JPT][hapmap]
rs1060700	0.89[CHB][hapmap];0.90[JPT][hapmap]
rs10950391	0.84[CHB][hapmap];0.86[JPT][hapmap]
rs10950395	0.90[CHB][hapmap];0.90[JPT][hapmap]
rs11981005	0.87[EUR][1000 genomes]
rs12667950	0.89[CHB][hapmap];0.90[JPT][hapmap]
rs12671250	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12699338	0.90[ASN][1000 genomes]
rs13230513	0.89[CHB][hapmap];0.90[JPT][hapmap]
rs1435526	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1435543	0.92[CEU][hapmap];0.90[CHB][hapmap];0.90[JPT][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1468801	0.94[CHB][hapmap];0.88[JPT][hapmap]
rs1468804	0.90[CHB][hapmap];0.85[GIH][hapmap];0.90[JPT][hapmap]
rs1548884	0.80[ASN][1000 genomes]
rs1990620	0.84[ASN][1000 genomes]
rs1990621	0.84[ASN][1000 genomes]
rs1990622	0.95[CHB][hapmap];0.82[CHD][hapmap];0.90[GIH][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs2043539	0.90[CHB][hapmap];0.90[JPT][hapmap]
rs2098363	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2160269	0.85[CEU][hapmap];0.90[CHB][hapmap];0.82[GIH][hapmap];0.90[JPT][hapmap];0.87[MEX][hapmap];0.93[TSI][hapmap];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs3173615	0.90[CHB][hapmap];0.90[JPT][hapmap]
rs3800842	0.92[CEU][hapmap];0.88[CHB][hapmap];0.90[JPT][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3800844	0.92[CEU][hapmap];0.90[CHB][hapmap];0.90[JPT][hapmap];0.95[EUR][1000 genomes]
rs3800845	0.92[CEU][hapmap];0.89[CHB][hapmap];0.84[CHD][hapmap];0.92[GIH][hapmap];0.90[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3807865	0.86[JPT][hapmap]
rs3823612	0.89[CHB][hapmap];0.85[GIH][hapmap];0.90[JPT][hapmap]
rs4719302	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4721056	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4721058	0.89[CHB][hapmap];0.90[JPT][hapmap]
rs4721059	0.89[CHB][hapmap];0.84[CHD][hapmap];0.85[GIH][hapmap];0.90[JPT][hapmap]
rs4721061	0.94[CHB][hapmap];0.90[JPT][hapmap]
rs4721064	0.89[ASN][1000 genomes]
rs5011431	0.93[CHB][hapmap];0.89[JPT][hapmap]
rs5011432	0.84[CHB][hapmap];0.81[CHD][hapmap];0.85[JPT][hapmap]
rs5011433	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs5011434	0.89[CHB][hapmap];0.90[JPT][hapmap]
rs5011439	0.89[CHB][hapmap];0.90[JPT][hapmap]
rs6415232	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6460895	0.89[CHB][hapmap];0.84[CHD][hapmap];0.83[GIH][hapmap];0.90[JPT][hapmap]
rs6460898	0.90[CHB][hapmap];0.90[JPT][hapmap]
rs6460900	0.89[CHB][hapmap];0.84[CHD][hapmap];0.85[GIH][hapmap];0.90[JPT][hapmap]
rs6460903	0.92[CEU][hapmap];0.90[CHB][hapmap];0.84[CHD][hapmap];0.97[GIH][hapmap];0.90[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6460905	0.84[ASN][1000 genomes]
rs6460906	0.84[ASN][1000 genomes]
rs6947327	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6966915	0.90[CHB][hapmap];0.83[CHD][hapmap];0.85[GIH][hapmap];0.90[JPT][hapmap]
rs6974465	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7785087	0.95[CHB][hapmap];0.90[JPT][hapmap]
rs7791726	0.84[ASN][1000 genomes]
rs7792410	0.89[CHB][hapmap];0.82[CHD][hapmap];0.85[GIH][hapmap];0.90[JPT][hapmap]
rs7804433	0.83[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv606199	chr7:11506143-12486659	Active TSS Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv534432	chr7:12148960-12693032	Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv1024554	chr7:12214722-12967418	Active TSS Flanking Active TSS ZNF genes & repeats Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
4	nsv538735	chr7:12214722-12967418	Bivalent/Poised TSS Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
5	nsv1033704	chr7:12286225-12355773	Flanking Active TSS Weak transcription Active TSS Enhancers ZNF genes & repeats	Chromatin interactive region	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	chr7:12271800-12289000	Weak transcription	HSMM	muscle
2	chr7:12280000-12295000	Weak transcription	Primary T helper naive cells from peripheral blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links