Variant report

Variant	rs13039593
Chromosome Location	chr20:13879299-13879300
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs1018705	0.88[CEU][hapmap];1.00[CHB][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.82[TSI][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13039364	0.88[JPT][hapmap]
rs13040728	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13042614	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1969694	0.87[EUR][1000 genomes]
rs2073289	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2073290	0.90[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.90[TSI][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2327797	0.88[JPT][hapmap]
rs2423749	0.85[GIH][hapmap]
rs2423761	1.00[LWK][hapmap]
rs243910	1.00[LWK][hapmap];0.82[YRI][hapmap]
rs243911	0.82[YRI][hapmap]
rs3180370	0.85[GIH][hapmap];0.88[JPT][hapmap]
rs34154402	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs35464831	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs35989947	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs437436	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4813139	0.82[GIH][hapmap]
rs4814258	0.82[GIH][hapmap]
rs6033809	0.82[GIH][hapmap]
rs6033821	0.85[GIH][hapmap];0.88[JPT][hapmap]
rs6033833	0.82[EUR][1000 genomes]
rs6042318	0.88[JPT][hapmap]
rs6042319	0.88[JPT][hapmap]
rs6042324	0.82[GIH][hapmap]
rs6042336	0.86[JPT][hapmap]
rs6042425	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.96[TSI][hapmap]
rs6042426	1.00[LWK][hapmap];0.82[YRI][hapmap]
rs6042480	1.00[LWK][hapmap]
rs6074637	0.82[GIH][hapmap]
rs6074643	0.88[JPT][hapmap]
rs6074644	0.88[JPT][hapmap]
rs6074662	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6079149	0.88[JPT][hapmap]
rs6079154	0.88[JPT][hapmap]
rs6079156	0.88[JPT][hapmap]
rs6079158	0.88[JPT][hapmap]
rs6079162	0.85[GIH][hapmap];0.88[JPT][hapmap]
rs6079166	0.81[GIH][hapmap];0.88[JPT][hapmap]
rs6079181	0.84[GIH][hapmap];0.88[JPT][hapmap]
rs6079204	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6079271	0.90[CEU][hapmap]
rs6110026	0.88[JPT][hapmap]
rs6131526	0.91[EUR][1000 genomes]
rs754796	0.82[GIH][hapmap]

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	nsv916202	chr20:13421724-14043615	Flanking Active TSS Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1066810	chr20:13451869-14432454	Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv912689	chr20:13570331-14155881	Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv1059221	chr20:13589432-13977327	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv531479	chr20:13632491-14434432	Strong transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Weak transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
6	esv1801502	chr20:13876114-13895580	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

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