Variant report

Variant	rs9542139
Chromosome Location	chr13:70545902-70545903
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs1571877	0.87[CEU][hapmap];0.88[JPT][hapmap]
rs2225530	0.92[CEU][hapmap];0.90[CHB][hapmap];0.88[JPT][hapmap];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2482551	0.92[CEU][hapmap];0.86[CHB][hapmap];0.88[JPT][hapmap];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2482555	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2482556	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2482557	0.92[CEU][hapmap];0.86[CHB][hapmap];0.94[JPT][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2482575	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2501197	0.91[CEU][hapmap];0.85[CHB][hapmap];0.81[JPT][hapmap];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2501222	0.92[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4559807	0.80[CHB][hapmap];0.82[JPT][hapmap];0.82[YRI][hapmap]
rs7319557	0.80[CHB][hapmap];0.88[JPT][hapmap]
rs7325506	0.83[JPT][hapmap]
rs7327798	0.81[CHB][hapmap];0.94[JPT][hapmap]
rs7993620	0.92[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7994975	0.96[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap]
rs7995348	0.83[EUR][1000 genomes]
rs7999570	0.92[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap]
rs7999936	0.92[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap]
rs868116	0.92[CEU][hapmap];0.86[CHB][hapmap];0.88[JPT][hapmap];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9317847	0.81[CHB][hapmap];0.88[JPT][hapmap]
rs9317849	0.92[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9317850	0.92[CEU][hapmap];0.80[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9317853	0.84[CEU][hapmap]
rs9317854	0.85[CEU][hapmap]
rs9317855	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9542116	0.80[CHB][hapmap];0.81[ASN][1000 genomes]
rs9542117	0.81[JPT][hapmap]
rs9542130	0.96[CEU][hapmap];0.86[CHB][hapmap];0.88[JPT][hapmap];0.82[YRI][hapmap]
rs9542134	0.92[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9542136	0.96[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9542137	0.92[CEU][hapmap];0.86[CHB][hapmap];0.94[JPT][hapmap]
rs9542138	0.92[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap]
rs9542140	0.95[CEU][hapmap];0.81[CHB][hapmap];0.88[JPT][hapmap]
rs9572314	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9572315	0.91[CEU][hapmap];0.80[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9572316	0.81[CEU][hapmap]
rs9572317	0.92[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9572318	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9572321	0.95[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap]
rs9572322	0.92[CEU][hapmap];0.86[CHB][hapmap];0.94[JPT][hapmap]
rs9599525	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv900481	chr13:70147851-70560731	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv900487	chr13:70327693-70548643	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv530724	chr13:70393680-71164323	Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv1045918	chr13:70409675-70615997	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv1038695	chr13:70484098-70654204	Weak transcription Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	nsv900488	chr13:70487282-70560731	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
7	nsv900489	chr13:70487282-70578306	Enhancers Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
8	nsv455966	chr13:70491038-70551029	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Bivalent Enhancer Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv562219	chr13:70491038-70551029	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
10	nsv900490	chr13:70491038-70551029	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
11	nsv900491	chr13:70499394-70578306	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
12	nsv900492	chr13:70508163-70560731	Flanking Active TSS Active TSS Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
13	nsv900493	chr13:70508163-70578306	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
14	nsv530606	chr13:70510296-70780461	Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	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