Variant report

Variant	rs1538051
Chromosome Location	chr13:86275893-86275894
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs1011902	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1337255	0.82[AFR][1000 genomes]
rs1415396	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1538049	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1538050	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1538052	0.94[AFR][1000 genomes]
rs1538056	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1556773	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1556774	0.91[AFR][1000 genomes]
rs1753738	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1753741	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1753764	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1753768	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1753771	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1753772	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1753780	0.83[EUR][1000 genomes]
rs1753789	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1753795	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1764940	0.83[EUR][1000 genomes]
rs1764951	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1764953	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1764954	0.83[EUR][1000 genomes]
rs1764958	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1764959	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1764961	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1764964	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1764968	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2243633	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2245400	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2255983	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2343058	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4542551	0.81[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4911018	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7342473	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7982006	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7988996	0.92[AFR][1000 genomes]
rs9531825	0.91[AFR][1000 genomes]
rs9531827	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9547324	0.92[AFR][1000 genomes]
rs9547325	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9547327	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9547328	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9547332	0.80[AFR][1000 genomes]
rs9547334	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9547335	0.81[AFR][1000 genomes]
rs9547336	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9547337	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9566091	0.82[EUR][1000 genomes]
rs9575932	0.82[EUR][1000 genomes]
rs9602804	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9635069	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2752724	chr13:85810499-86320999	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv1037563	chr13:85830511-86414012	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv471162	chr13:85994700-86296819	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv456051	chr13:85994700-86306452	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv562609	chr13:85994700-86306452	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv900733	chr13:86192376-86309366	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Genic enhancers	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv832668	chr13:86234885-86364254	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
8	nsv1044417	chr13:86239152-86344862	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:86274000-86313200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr13:86275800-86281400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links