Variant report

Variant	rs7989908
Chromosome Location	chr13:86238982-86238983
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10161573	1.00[AMR][1000 genomes]
rs1753765	0.83[AFR][1000 genomes]
rs28522708	1.00[AMR][1000 genomes]
rs6650465	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7324192	1.00[AMR][1000 genomes]
rs7338588	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7358846	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7358965	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74102064	0.80[AFR][1000 genomes]
rs7990783	1.00[AMR][1000 genomes]
rs7991992	1.00[AMR][1000 genomes]
rs7992596	0.95[AFR][1000 genomes]
rs7993201	0.82[AFR][1000 genomes]
rs7996296	1.00[AMR][1000 genomes]
rs8000059	1.00[AMR][1000 genomes]
rs9319169	1.00[AMR][1000 genomes]
rs9319172	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9594041	1.00[AMR][1000 genomes]
rs9594042	1.00[AMR][1000 genomes]
rs9594045	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9602790	1.00[AMR][1000 genomes]
rs9602791	1.00[AMR][1000 genomes]
rs9602792	1.00[AMR][1000 genomes]
rs9602795	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9602796	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9602797	0.95[AFR][1000 genomes]
rs9602798	0.95[AFR][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	nsv916866	chr13:85505771-86241562	Active TSS Enhancers Genic enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	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
3	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
4	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
5	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
6	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
7	nsv428608	chr13:86109178-86262577	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	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
9	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

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:86235200-86239000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr13:86235800-86239400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr13:86237800-86239200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr13:86238000-86240600	Enhancers	ES-I3 Cell Line	embryonic stem cell
5	chr13:86238600-86239200	Enhancers	Placenta Amnion	Placenta Amnion
6	chr13:86238800-86239000	Enhancers	Fetal Lung	lung

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