Variant report

Variant	rs17839358
Chromosome Location	chr5:29147336-29147337
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:29145282..29146802-chr5:29147272..29149204,2	MCF-7	breast:

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

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

rs_ID	r²[population]
rs1158782	1.00[EUR][1000 genomes]
rs160307	1.00[EUR][1000 genomes]
rs160311	1.00[EUR][1000 genomes]
rs16898735	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16898749	1.00[EUR][1000 genomes]
rs177934	1.00[EUR][1000 genomes]
rs56671843	1.00[EUR][1000 genomes]
rs57319851	1.00[EUR][1000 genomes]
rs57958129	1.00[EUR][1000 genomes]
rs58162291	1.00[EUR][1000 genomes]
rs58550915	1.00[EUR][1000 genomes]
rs58789672	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73060390	1.00[EUR][1000 genomes]
rs73060398	1.00[EUR][1000 genomes]
rs73062309	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73062332	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73062350	0.97[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73062358	1.00[EUR][1000 genomes]
rs73062368	1.00[EUR][1000 genomes]
rs73079453	1.00[EUR][1000 genomes]
rs73079454	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73079458	1.00[EUR][1000 genomes]
rs73079467	1.00[EUR][1000 genomes]
rs73079468	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73079472	1.00[EUR][1000 genomes]
rs7723965	1.00[ASN][1000 genomes]
rs7729408	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][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	nsv1023990	chr5:28917253-29220447	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv1027037	chr5:28936195-29147837	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	esv3528360	chr5:29069255-29548659	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
4	esv3528361	chr5:29069255-29548659	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
5	nsv1022253	chr5:29076460-29195987	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
6	nsv1016603	chr5:29102713-29843965	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
7	nsv537712	chr5:29102713-29843965	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
8	nsv1030526	chr5:29125802-29204186	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
9	nsv964827	chr5:29138557-29198352	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:29144000-29148000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
2	chr5:29144000-29148600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
3	chr5:29144000-29150600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr5:29146800-29150600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell

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