Variant report

Variant	rs169240
Chromosome Location	chr5:95685235-95685236
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:95679934..95682177-chr5:95683139..95686030,2	MCF-7	breast:

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs113317	0.91[CEU][hapmap];0.83[CHB][hapmap];0.89[JPT][hapmap];0.83[EUR][1000 genomes]
rs113318	0.91[CEU][hapmap];0.83[CHB][hapmap];0.89[JPT][hapmap];0.83[EUR][1000 genomes]
rs1364034	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs155968	0.92[CEU][hapmap];0.83[CHB][hapmap];0.90[JPT][hapmap];0.81[EUR][1000 genomes]
rs155969	0.91[CEU][hapmap];0.83[CHB][hapmap];0.89[JPT][hapmap];0.81[EUR][1000 genomes]
rs155970	0.81[EUR][1000 genomes]
rs155996	0.92[CEU][hapmap];0.83[CHB][hapmap];0.90[JPT][hapmap]
rs156016	0.92[CEU][hapmap];0.83[CHB][hapmap];0.90[JPT][hapmap];0.83[EUR][1000 genomes]
rs156020	0.91[CEU][hapmap];0.83[CHB][hapmap];0.89[JPT][hapmap];0.81[EUR][1000 genomes]
rs1645574	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs200155	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs271913	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs271920	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs271922	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs271924	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs271925	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs271926	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs271941	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs271942	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs271943	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs271944	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs271945	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2936427	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4077816	0.89[CHB][hapmap];0.94[JPT][hapmap]
rs4379224	0.83[CHB][hapmap];0.90[JPT][hapmap]
rs459608	0.91[CEU][hapmap];0.83[CHB][hapmap];0.89[JPT][hapmap];0.82[EUR][1000 genomes]
rs6233	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6893547	0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1030444	chr5:95353620-95995619	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases
2	nsv537810	chr5:95353620-95995619	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:95672200-95687400	Enhancers	Hela-S3	cervix
2	chr5:95674800-95686400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr5:95680400-95686200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr5:95681000-95685400	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr5:95681200-95685800	Weak transcription	HepG2	liver
6	chr5:95684000-95685400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr5:95684600-95686400	Weak transcription	HUVEC	blood vessel
8	chr5:95684600-95686600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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