Variant report

Variant	rs2539734
Chromosome Location	chr5:57082201-57082202
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	chr5:57082192..57084019-chr5:57754446..57756742,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000145632	Chromatin interaction

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs1016458	0.87[CHB][hapmap]
rs11738352	0.87[CHB][hapmap]
rs11749778	0.86[CHB][hapmap]
rs12519846	0.84[ASN][1000 genomes]
rs1347072	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1347073	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1432477	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1432480	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1432481	1.00[ASN][1000 genomes]
rs1476938	0.86[CHB][hapmap]
rs1816391	0.83[ASN][1000 genomes]
rs1835876	0.83[ASN][1000 genomes]
rs2053013	0.83[ASN][1000 genomes]
rs2215813	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2408851	0.87[CHB][hapmap]
rs2539731	0.86[CHB][hapmap]
rs2539732	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2568533	0.99[ASN][1000 genomes]
rs2568534	1.00[ASN][1000 genomes]
rs2568535	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2568536	1.00[ASN][1000 genomes]
rs2898030	0.83[ASN][1000 genomes]
rs2898031	0.82[ASN][1000 genomes]
rs35483666	0.83[ASN][1000 genomes]
rs4700229	0.83[ASN][1000 genomes]
rs4700230	0.83[ASN][1000 genomes]
rs6887425	0.86[CHB][hapmap]
rs6892809	0.84[ASN][1000 genomes]
rs757635	1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[ASN][1000 genomes]
rs854025	0.99[ASN][1000 genomes]
rs854026	0.99[ASN][1000 genomes]
rs854027	0.99[ASN][1000 genomes]
rs854030	0.99[ASN][1000 genomes]
rs854032	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs854034	0.99[ASN][1000 genomes]
rs854037	0.89[YRI][hapmap]
rs887868	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs987671	0.86[CHB][hapmap]
rs988658	1.00[CHB][hapmap];0.95[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv525330	chr5:56931673-57320343	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	esv2756302	chr5:56978143-57180143	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv830310	chr5:56989346-57176006	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	esv2763454	chr5:57006531-57161140	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	esv3368708	chr5:57081495-57086493	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:57080800-57082400	Weak transcription	Fetal Lung	lung
2	chr5:57080800-57082400	Weak transcription	Placenta	Placenta

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