Variant report

Variant	rs939399
Chromosome Location	chr2:50645943-50645944
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10182151	0.96[CEU][hapmap];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10191436	0.85[CEU][hapmap];0.84[JPT][hapmap]
rs10194754	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10865246	0.92[CEU][hapmap];0.91[EUR][1000 genomes]
rs11125300	0.85[CEU][hapmap]
rs11125301	0.85[CEU][hapmap]
rs11125304	0.92[EUR][1000 genomes]
rs12465806	0.85[CEU][hapmap]
rs12472592	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12622261	0.85[CEU][hapmap]
rs13382330	0.96[CEU][hapmap]
rs13394447	0.83[CEU][hapmap]
rs1402127	0.85[ASN][1000 genomes]
rs1402129	0.85[CEU][hapmap]
rs1402167	0.89[CEU][hapmap]
rs1520435	0.92[CEU][hapmap];0.91[EUR][1000 genomes]
rs1520450	0.83[CEU][hapmap]
rs1829534	0.89[CEU][hapmap]
rs1851013	1.00[CEU][hapmap]
rs1851014	0.83[CEU][hapmap]
rs1915174	0.85[CEU][hapmap]
rs1949569	0.85[CEU][hapmap]
rs2037387	0.85[CEU][hapmap]
rs2139628	0.92[CEU][hapmap];0.88[EUR][1000 genomes]
rs2160444	0.96[CEU][hapmap];0.91[EUR][1000 genomes]
rs2351518	0.82[ASN][1000 genomes]
rs2351519	0.92[ASN][1000 genomes]
rs35125023	0.91[EUR][1000 genomes]
rs4031833	0.88[EUR][1000 genomes]
rs4318425	0.89[CEU][hapmap]
rs4971669	0.82[CEU][hapmap]
rs4971673	0.85[ASN][1000 genomes]
rs4971675	0.96[CEU][hapmap];0.91[EUR][1000 genomes]
rs6545169	0.96[CEU][hapmap];0.92[EUR][1000 genomes]
rs6545170	0.90[EUR][1000 genomes]
rs6721052	0.89[EUR][1000 genomes]
rs6736016	0.89[EUR][1000 genomes]
rs6739297	0.89[EUR][1000 genomes]
rs7559624	0.83[CEU][hapmap]
rs7574552	0.85[CEU][hapmap]
rs7577661	0.85[CEU][hapmap]
rs7587241	0.96[CEU][hapmap];0.81[CHB][hapmap]
rs7607203	0.92[CEU][hapmap];0.90[EUR][1000 genomes]
rs939400	1.00[CEU][hapmap];0.87[CHB][hapmap]
rs9678669	0.85[ASN][1000 genomes]
rs9917332	0.92[CEU][hapmap];0.89[EUR][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	nsv492164	chr2:50399251-51029090	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1000653	chr2:50417660-51083470	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv535693	chr2:50417660-51083470	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv948548	chr2:50569117-50695100	Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv948361	chr2:50611076-50785178	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv933786	chr2:50628354-50780185	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

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

No data

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

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