Variant report

Variant	rs12620857
Chromosome Location	chr2:77465284-77465285
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10171055	0.88[ASN][1000 genomes]
rs10177951	0.88[ASN][1000 genomes]
rs10183555	1.00[CEU][hapmap];0.91[CHB][hapmap];0.88[JPT][hapmap]
rs10183629	0.91[CHB][hapmap];0.88[JPT][hapmap]
rs10184075	1.00[CEU][hapmap];0.91[CHB][hapmap];0.88[JPT][hapmap]
rs10210422	0.83[ASN][1000 genomes]
rs10496205	0.83[CHD][hapmap];0.85[ASN][1000 genomes]
rs10865428	1.00[CEU][hapmap];0.91[CHB][hapmap];0.81[CHD][hapmap];0.89[GIH][hapmap];0.88[JPT][hapmap];0.81[TSI][hapmap];0.83[ASN][1000 genomes]
rs11126595	0.95[CHB][hapmap];0.88[JPT][hapmap];0.88[ASN][1000 genomes]
rs11126596	0.87[ASN][1000 genomes]
rs11893082	1.00[CEU][hapmap];0.95[CHB][hapmap];0.88[JPT][hapmap];0.83[ASN][1000 genomes]
rs11894888	0.84[ASN][1000 genomes]
rs11898309	0.86[ASN][1000 genomes]
rs12613224	1.00[CEU][hapmap];0.95[CHB][hapmap];0.83[CHD][hapmap];0.88[JPT][hapmap];0.81[TSI][hapmap];0.88[ASN][1000 genomes]
rs12620087	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs12621232	1.00[CEU][hapmap];0.91[CHB][hapmap];0.88[JPT][hapmap];0.83[ASN][1000 genomes]
rs12623152	0.94[CHB][hapmap];0.88[JPT][hapmap];0.88[ASN][1000 genomes]
rs1371429	1.00[CEU][hapmap];0.91[CHB][hapmap];0.88[JPT][hapmap];0.82[ASN][1000 genomes]
rs1371431	1.00[CEU][hapmap];0.86[CHB][hapmap];0.83[ASN][1000 genomes]
rs1371432	1.00[CEU][hapmap];0.91[CHB][hapmap];0.88[JPT][hapmap];0.83[ASN][1000 genomes]
rs17013837	1.00[CEU][hapmap];0.95[CHB][hapmap];0.88[JPT][hapmap];0.88[ASN][1000 genomes]
rs17013839	0.95[CHB][hapmap];0.88[JPT][hapmap];0.93[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2119034	1.00[CEU][hapmap];0.95[CHB][hapmap];0.88[JPT][hapmap];0.89[ASN][1000 genomes]
rs2861017	1.00[CEU][hapmap]
rs2861018	1.00[CEU][hapmap];0.95[CHB][hapmap];0.88[JPT][hapmap]
rs28667227	0.83[ASN][1000 genomes]
rs3943682	1.00[CHB][hapmap];0.94[CHD][hapmap];0.92[GIH][hapmap];0.94[JPT][hapmap]
rs55667099	0.93[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6547127	1.00[CEU][hapmap];0.91[CHB][hapmap];0.88[JPT][hapmap]
rs6547130	1.00[CEU][hapmap];0.88[ASN][1000 genomes]
rs6547131	1.00[CEU][hapmap];0.95[CHB][hapmap];0.88[JPT][hapmap];0.88[ASN][1000 genomes]
rs6715877	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.92[YRI][hapmap]
rs6724894	1.00[CEU][hapmap];0.95[CHB][hapmap];0.88[JPT][hapmap];0.89[ASN][1000 genomes]
rs6729232	1.00[CEU][hapmap];0.95[CHB][hapmap];0.88[JPT][hapmap];0.90[ASN][1000 genomes]
rs6734221	0.88[ASN][1000 genomes]
rs6735765	1.00[CEU][hapmap];0.91[CHB][hapmap];0.88[JPT][hapmap]
rs6743825	1.00[CEU][hapmap];0.91[CHB][hapmap];0.88[JPT][hapmap];0.83[ASN][1000 genomes]
rs6743954	0.83[ASN][1000 genomes]
rs6748317	1.00[CEU][hapmap];0.95[CHB][hapmap];0.88[JPT][hapmap]
rs6757172	1.00[CEU][hapmap];0.82[CHB][hapmap]
rs6757659	1.00[CEU][hapmap];0.91[CHB][hapmap];0.88[JPT][hapmap];0.83[ASN][1000 genomes]
rs6761170	1.00[CEU][hapmap];0.95[CHB][hapmap];0.88[JPT][hapmap];0.88[ASN][1000 genomes]
rs67676091	0.83[ASN][1000 genomes]
rs72809107	0.86[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs72809108	0.83[ASN][1000 genomes]
rs72809119	0.93[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7558341	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7580546	1.00[CEU][hapmap];0.95[CHB][hapmap];0.81[CHD][hapmap];0.92[GIH][hapmap];0.88[JPT][hapmap];0.81[TSI][hapmap];0.88[ASN][1000 genomes]
rs7581365	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap]
rs7585096	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7605690	1.00[CEU][hapmap];0.91[CHB][hapmap];0.81[CHD][hapmap];0.89[GIH][hapmap];0.88[JPT][hapmap];0.81[TSI][hapmap]
rs964920	1.00[CEU][hapmap];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949670	chr2:77125218-77712607	Weak transcription Enhancers Bivalent Enhancer Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv874333	chr2:77315349-77798886	Enhancers Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv518504	chr2:77326832-78172786	Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv1004938	chr2:77347740-78186543	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
5	nsv535783	chr2:77347740-78186543	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
6	nsv529904	chr2:77347741-78186542	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
7	nsv997329	chr2:77354560-78176285	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
8	nsv874335	chr2:77404112-77488500	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
9	esv2762680	chr2:77452866-77507404	Enhancers Active TSS Weak transcription	n/a	n/a	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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