Variant report

Variant	rs16848107
Chromosome Location	chr2:142851263-142851264
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10173643	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10175827	0.87[CHB][hapmap];0.91[JPT][hapmap]
rs10179841	1.00[CEU][hapmap];0.86[JPT][hapmap]
rs10190170	0.89[CEU][hapmap];0.93[GIH][hapmap];0.90[MEX][hapmap];0.95[TSI][hapmap]
rs10193058	0.84[CHB][hapmap]
rs10496912	1.00[CEU][hapmap];0.94[CHB][hapmap];0.92[JPT][hapmap]
rs10496913	1.00[CEU][hapmap]
rs11686843	0.81[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs11691560	0.86[JPT][hapmap]
rs11691595	0.86[JPT][hapmap]
rs11693460	0.81[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs12470890	0.84[JPT][hapmap]
rs12613064	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12613097	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12619411	0.94[CEU][hapmap];0.82[CHB][hapmap];0.85[EUR][1000 genomes]
rs13429550	1.00[CEU][hapmap];0.94[CHB][hapmap];0.90[JPT][hapmap]
rs1349219	0.86[JPT][hapmap]
rs1349221	0.86[JPT][hapmap]
rs1375606	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1375609	0.86[JPT][hapmap]
rs1375611	0.81[JPT][hapmap]
rs1449476	0.86[JPT][hapmap]
rs1449479	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[GIH][hapmap];0.86[JPT][hapmap];1.00[LWK][hapmap];0.95[MKK][hapmap];0.90[TSI][hapmap];0.94[YRI][hapmap];0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1449480	1.00[CEU][hapmap];0.93[GIH][hapmap];0.86[JPT][hapmap];0.85[MEX][hapmap];0.95[TSI][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs16848074	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17826042	1.00[CEU][hapmap];0.94[CHB][hapmap];0.92[JPT][hapmap]
rs1868542	0.86[JPT][hapmap]
rs1900936	0.84[JPT][hapmap]
rs2167053	0.86[JPT][hapmap]
rs2290140	0.84[JPT][hapmap]
rs4550611	0.83[EUR][1000 genomes]
rs4662219	0.92[JPT][hapmap]
rs56217570	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72851467	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7581031	0.86[JPT][hapmap]
rs7586417	1.00[CEU][hapmap];0.92[JPT][hapmap];0.94[YRI][hapmap];0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7608258	0.86[JPT][hapmap]
rs7609479	1.00[CEU][hapmap];0.93[GIH][hapmap];0.86[JPT][hapmap];0.86[MEX][hapmap];0.95[TSI][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs970600	1.00[CEU][hapmap];0.94[CHB][hapmap];0.94[CHD][hapmap];0.87[GIH][hapmap];0.92[JPT][hapmap];0.81[MEX][hapmap];0.83[TSI][hapmap]
rs970601	1.00[CEU][hapmap];0.94[CHB][hapmap];0.94[CHD][hapmap];0.98[GIH][hapmap];0.92[JPT][hapmap];0.80[MKK][hapmap];0.90[TSI][hapmap]
rs980178	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9973706	1.00[CEU][hapmap];0.89[CHB][hapmap];0.86[JPT][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]

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	nsv997274	chr2:142760393-143599193	Enhancers Bivalent/Poised TSS Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv526107	chr2:142768518-142884248	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv875253	chr2:142805006-142855291	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv875254	chr2:142833327-142931146	Bivalent/Poised TSS Active TSS Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1006247	chr2:142851056-143289465	Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs16848107	ZEB2	cis	cerebellum	SCAN

Chromatin state (count:0 , 50 per page) page:

No data

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links