Variant report

Variant	rs12146828
Chromosome Location	chr12:7739341-7739342
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 79 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs10505732	0.98[ASN][1000 genomes]
rs10772515	0.85[ASN][1000 genomes]
rs10845427	0.91[ASN][1000 genomes]
rs10845431	0.85[ASN][1000 genomes]
rs10845432	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10845548	0.81[EUR][1000 genomes]
rs11054516	0.91[ASN][1000 genomes]
rs11054521	0.92[ASN][1000 genomes]
rs11054527	0.92[ASN][1000 genomes]
rs11054533	0.92[ASN][1000 genomes]
rs11054541	0.86[ASN][1000 genomes]
rs11054543	0.98[ASN][1000 genomes]
rs11054544	0.98[ASN][1000 genomes]
rs11054545	0.98[ASN][1000 genomes]
rs11054546	0.98[ASN][1000 genomes]
rs11054547	0.95[ASN][1000 genomes]
rs11054548	0.94[ASN][1000 genomes]
rs11054552	0.99[ASN][1000 genomes]
rs11054553	0.99[ASN][1000 genomes]
rs11054554	0.98[ASN][1000 genomes]
rs11054555	0.98[ASN][1000 genomes]
rs11054556	0.99[ASN][1000 genomes]
rs11054590	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11054592	1.00[ASN][1000 genomes]
rs11054593	0.88[ASN][1000 genomes]
rs11054595	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11054598	1.00[ASN][1000 genomes]
rs11054599	0.94[ASN][1000 genomes]
rs11054600	0.96[ASN][1000 genomes]
rs11054601	1.00[ASN][1000 genomes]
rs11054607	1.00[ASN][1000 genomes]
rs11054608	1.00[ASN][1000 genomes]
rs11054611	1.00[ASN][1000 genomes]
rs11054612	1.00[ASN][1000 genomes]
rs11054622	0.93[ASN][1000 genomes]
rs11054625	0.89[ASN][1000 genomes]
rs11561260	0.99[ASN][1000 genomes]
rs12816383	0.93[ASN][1000 genomes]
rs1419976	0.90[CHB][hapmap];0.94[JPT][hapmap]
rs1419979	0.93[ASN][1000 genomes]
rs1558531	1.00[ASN][1000 genomes]
rs1558532	1.00[ASN][1000 genomes]
rs1558533	1.00[ASN][1000 genomes]
rs2080125	0.92[ASN][1000 genomes]
rs2377089	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6488490	1.00[ASN][1000 genomes]
rs6488498	0.99[ASN][1000 genomes]
rs6488499	0.99[ASN][1000 genomes]
rs7132588	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7134366	1.00[ASN][1000 genomes]
rs7137688	0.98[ASN][1000 genomes]
rs7301321	0.88[ASN][1000 genomes]
rs7302914	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap]
rs7303716	1.00[ASN][1000 genomes]
rs7314249	0.89[ASN][1000 genomes]
rs7314851	0.99[ASN][1000 genomes]
rs73256880	1.00[ASN][1000 genomes]
rs73256883	1.00[ASN][1000 genomes]
rs752452	0.82[EUR][1000 genomes]
rs7955346	1.00[ASN][1000 genomes]
rs7959013	0.98[ASN][1000 genomes]
rs7959765	1.00[ASN][1000 genomes]
rs7969376	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7970227	1.00[ASN][1000 genomes]
rs7972470	1.00[ASN][1000 genomes]
rs7974405	1.00[ASN][1000 genomes]
rs7976359	1.00[ASN][1000 genomes]
rs7980155	1.00[ASN][1000 genomes]
rs9634074	0.89[ASN][1000 genomes]
rs9634075	0.88[ASN][1000 genomes]
rs9634123	0.89[ASN][1000 genomes]
rs9634124	0.99[ASN][1000 genomes]
rs9634125	0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1041155	chr12:7655137-7821891	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv1045650	chr12:7655137-7824995	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv557270	chr12:7727544-7801532	Active TSS Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv468990	chr12:7729433-7801532	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv557271	chr12:7729433-7801532	Active TSS Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv826213	chr12:7730932-7830644	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs12146828	TAS2R42	cis	cerebellum	SCAN
rs12146828	SCNN1A	cis	cerebellum	SCAN
rs12146828	SCARNA11	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:7736600-7741000	Weak transcription	Placenta	Placenta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links