Variant report

Variant	rs12623466
Chromosome Location	chr2:141532906-141532907
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs10191182	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs1021245	0.98[ASN][1000 genomes]
rs1025337	0.92[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap]
rs10928073	0.92[CEU][hapmap];0.90[CHB][hapmap];0.87[JPT][hapmap]
rs10928074	0.90[CHB][hapmap];0.87[JPT][hapmap];0.83[EUR][1000 genomes]
rs1120487	0.92[CEU][hapmap];0.90[CHB][hapmap];0.87[JPT][hapmap]
rs1120488	0.92[CEU][hapmap];0.90[CHB][hapmap];0.87[JPT][hapmap]
rs1124785	0.88[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap]
rs11674928	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11677778	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11678482	0.85[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap]
rs11684411	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11686050	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11688766	0.90[CHB][hapmap];0.87[JPT][hapmap]
rs11694855	0.95[CHB][hapmap];0.91[JPT][hapmap]
rs11893770	1.00[CHB][hapmap];0.95[JPT][hapmap];0.98[ASN][1000 genomes]
rs11895991	0.90[CHB][hapmap];0.86[JPT][hapmap]
rs12616902	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12620422	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12621209	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12691562	0.95[CHB][hapmap];0.82[JPT][hapmap]
rs12691571	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs13423554	0.92[CEU][hapmap]
rs13423651	1.00[CEU][hapmap]
rs1429330	0.89[CEU][hapmap];0.90[CHB][hapmap];0.87[JPT][hapmap]
rs1429333	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1429369	0.95[CHB][hapmap];0.91[JPT][hapmap]
rs17514829	0.92[CEU][hapmap];0.95[CHB][hapmap];0.82[JPT][hapmap]
rs17515225	0.89[CEU][hapmap];0.90[CHB][hapmap];0.87[JPT][hapmap]
rs17515498	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17515899	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17516434	0.92[CEU][hapmap];0.90[CHB][hapmap];0.87[JPT][hapmap]
rs17516630	0.92[CEU][hapmap]
rs17517552	0.86[CHB][hapmap]
rs17575847	0.92[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap]
rs1843585	0.85[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap]
rs1963394	0.92[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap]
rs2046506	0.92[CEU][hapmap];0.90[CHB][hapmap];0.87[JPT][hapmap]
rs2171173	0.92[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap]
rs2380889	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2380893	0.82[CEU][hapmap]
rs3828265	0.92[CEU][hapmap];0.95[CHB][hapmap];0.85[JPT][hapmap]
rs4423546	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs4616417	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4954856	0.90[CHB][hapmap];0.86[JPT][hapmap]
rs4954860	0.81[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs56313835	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6429844	1.00[CEU][hapmap]
rs6429845	0.85[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap];0.81[EUR][1000 genomes]
rs6429846	0.90[CHB][hapmap];0.86[JPT][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6716577	0.90[CHB][hapmap];0.87[JPT][hapmap]
rs6720709	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6720793	0.92[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap]
rs6722632	0.85[CHB][hapmap]
rs6735489	0.94[CHB][hapmap]
rs6738178	0.93[CEU][hapmap]
rs6749275	0.92[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap]
rs6749707	0.92[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap]
rs6755302	0.90[CHB][hapmap];0.86[JPT][hapmap]
rs6757066	0.96[ASN][1000 genomes]
rs7571628	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7571766	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7578679	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7606602	0.85[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap]
rs7606833	0.84[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap]
rs9287300	0.95[CHB][hapmap];0.86[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv875195	chr2:141407101-141542081	Flanking Active TSS Weak transcription Enhancers Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv875198	chr2:141409166-141571329	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv875199	chr2:141409166-141600366	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv875201	chr2:141448312-141561255	Active TSS Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv875202	chr2:141448312-141587228	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv875203	chr2:141448312-141592252	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv875204	chr2:141496596-141592252	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv875205	chr2:141500692-141592252	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv875206	chr2:141504719-141571329	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
10	nsv583198	chr2:141510791-142150620	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
11	nsv875207	chr2:141517652-141592252	Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
12	nsv1003008	chr2:141518795-141763505	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 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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