Variant report

Variant	rs10842470
Chromosome Location	chr12:25266203-25266204
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10505959	1.00[CHB][hapmap];0.94[CHD][hapmap];0.90[JPT][hapmap];0.88[ASN][1000 genomes]
rs10771165	0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10771166	0.81[CEU][hapmap];1.00[CHB][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10771174	0.89[CHB][hapmap];0.81[JPT][hapmap]
rs10771175	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10771176	1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap]
rs10842463	0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10842464	1.00[CHB][hapmap]
rs10842467	0.88[ASN][1000 genomes]
rs10842468	0.88[JPT][hapmap];0.88[ASN][1000 genomes]
rs10842469	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs10842471	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs10842490	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10842515	1.00[JPT][hapmap]
rs10842516	1.00[JPT][hapmap]
rs10842517	1.00[JPT][hapmap]
rs11047825	0.88[CHB][hapmap];0.80[ASN][1000 genomes]
rs11047843	0.92[ASN][1000 genomes]
rs11047858	0.89[CHB][hapmap]
rs11047885	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11047887	0.83[MKK][hapmap]
rs11047912	1.00[JPT][hapmap]
rs11047914	1.00[JPT][hapmap]
rs11047917	1.00[JPT][hapmap]
rs11832421	0.84[LWK][hapmap]
rs11834088	0.81[CEU][hapmap];1.00[CHB][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12227966	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12228364	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12228365	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12228638	1.00[CHB][hapmap];0.89[CHD][hapmap];0.89[JPT][hapmap]
rs12367971	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs12579073	0.83[MKK][hapmap]
rs1497253	0.81[CEU][hapmap];0.89[CHB][hapmap];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs17386824	0.90[ASN][1000 genomes]
rs17388587	1.00[JPT][hapmap]
rs17389103	1.00[JPT][hapmap]
rs2220196	1.00[CHB][hapmap];0.89[JPT][hapmap]
rs3924650	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4313666	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4368021	1.00[JPT][hapmap]
rs7133640	1.00[JPT][hapmap]
rs7134616	1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs7303373	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7303669	0.80[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];0.87[TSI][hapmap];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7309670	1.00[JPT][hapmap]
rs7315339	1.00[JPT][hapmap]
rs7960428	1.00[CHB][hapmap]
rs7960917	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs7964195	0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7971062	1.00[CHB][hapmap];0.89[JPT][hapmap]
rs7971288	1.00[CHB][hapmap];0.89[JPT][hapmap]
rs7972632	0.88[ASN][1000 genomes]
rs7973450	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs7975271	1.00[CHB][hapmap];0.88[CHD][hapmap]
rs7976145	0.88[ASN][1000 genomes]
rs7976254	1.00[CHB][hapmap];0.94[CHD][hapmap];0.90[JPT][hapmap];0.88[ASN][1000 genomes]
rs7976355	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs7977670	0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7980769	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv469169	chr12:24692383-25357680	Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Weak transcription Bivalent/Poised TSS 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	34 gene(s)	inside rSNPs	diseases
2	nsv557775	chr12:24692383-25357680	Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
3	nsv932477	chr12:24705151-25346677	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
4	nsv1067577	chr12:24791283-25346677	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
5	nsv529514	chr12:24791283-25346677	Enhancers Weak transcription Strong transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
6	nsv1041218	chr12:24972019-25304356	Weak transcription Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
7	nsv557796	chr12:25266203-25306458	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:25251800-25274600	Weak transcription	Pancreas	Pancrea
2	chr12:25261000-25268400	Weak transcription	Liver	Liver
3	chr12:25263600-25267600	Weak transcription	Thymus	Thymus
4	chr12:25263600-25268600	Weak transcription	GM12878-XiMat	blood
5	chr12:25263800-25267400	Weak transcription	Primary hematopoietic stem cells	blood
6	chr12:25263800-25288800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr12:25265000-25266600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood

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