Variant report

Variant	rs62346559
Chromosome Location	chr5:27311308-27311309
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs62346496	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs62346497	0.83[EUR][1000 genomes]
rs62346498	0.83[EUR][1000 genomes]
rs62346499	0.82[EUR][1000 genomes]
rs62346500	0.82[EUR][1000 genomes]
rs62346501	0.82[EUR][1000 genomes]
rs62346502	0.82[EUR][1000 genomes]
rs62346503	0.83[EUR][1000 genomes]
rs62346557	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs62346558	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62347660	1.00[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs72729014	0.83[EUR][1000 genomes]
rs72729015	0.83[EUR][1000 genomes]
rs72729016	0.83[EUR][1000 genomes]
rs72729018	0.82[EUR][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	nsv868856	chr5:26789778-27321390	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	3 gene(s)	inside rSNPs	diseases
2	esv3450425	chr5:27134073-27323407	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv881286	chr5:27135351-27770554	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
4	nsv880298	chr5:27193573-27659111	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
5	nsv880326	chr5:27193573-27743375	Transcr. at gene 5' and 3' Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
6	nsv881387	chr5:27264941-27373862	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv880623	chr5:27279981-27559659	Enhancers ZNF genes & repeats Strong transcription Active TSS Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
8	nsv880525	chr5:27308254-27447863	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	nsv880974	chr5:27308663-27357356	Flanking Active TSS Weak transcription Enhancers Strong transcription	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:27308600-27311800	Weak transcription	HMEC	breast
2	chr5:27308800-27311800	Weak transcription	NHEK	skin
3	chr5:27309400-27313600	Enhancers	iPS-15b Cell Line	embryonic stem cell
4	chr5:27310200-27313800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr5:27310800-27312800	Enhancers	HUES64 Cell Line	embryonic stem cell
6	chr5:27311200-27311400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
7	chr5:27311200-27312000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr5:27311200-27312800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr5:27311200-27313200	Enhancers	HUES48 Cell Line	embryonic stem cell
10	chr5:27311200-27317800	Enhancers	iPS-18 Cell Line	embryonic stem cell

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dbSNP/dbVar ID: rs12345 /nsv7879
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