Variant report

Variant	rs66955270
Chromosome Location	chr5:54122395-54122396
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	chr5:54122100..54123880-chr5:54124518..54126459,2	MCF-7	breast:

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs13156560	0.85[EUR][1000 genomes]
rs13173142	0.85[EUR][1000 genomes]
rs13183019	0.90[EUR][1000 genomes]
rs13183813	0.85[EUR][1000 genomes]
rs13436904	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs13436919	0.85[EUR][1000 genomes]
rs34211924	0.85[EUR][1000 genomes]
rs34503985	0.85[EUR][1000 genomes]
rs34563029	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34619620	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs34728968	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35046115	0.83[EUR][1000 genomes]
rs35409466	0.92[EUR][1000 genomes]
rs35463987	0.81[AMR][1000 genomes]
rs35805787	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35839938	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35985754	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs36000196	0.85[EUR][1000 genomes]
rs36009662	0.87[EUR][1000 genomes]
rs3935814	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3935815	0.87[EUR][1000 genomes]
rs4274943	0.85[EUR][1000 genomes]
rs4301189	0.89[EUR][1000 genomes]
rs4355479	0.85[EUR][1000 genomes]
rs4380600	0.85[EUR][1000 genomes]
rs4472223	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4526067	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4565175	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs55728436	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs55903850	0.82[EUR][1000 genomes]
rs55944106	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs56145198	0.86[EUR][1000 genomes]
rs56298453	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs57059470	0.84[EUR][1000 genomes]
rs57348772	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs60775366	0.85[EUR][1000 genomes]
rs6450249	0.86[EUR][1000 genomes]
rs66525543	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs66812968	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs66928876	0.85[EUR][1000 genomes]
rs67500010	0.85[EUR][1000 genomes]
rs6876730	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs72757444	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72757446	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72760107	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7733091	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7734384	0.85[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	nsv830300	chr5:54056300-54257344	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	esv3358092	chr5:54077828-54189150	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:54117200-54138000	Weak transcription	Aorta	Aorta
2	chr5:54117600-54126800	Weak transcription	NHLF	lung
3	chr5:54118000-54126200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr5:54118000-54128600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr5:54118600-54123200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr5:54118600-54129200	Weak transcription	Placenta	Placenta
7	chr5:54119800-54122400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr5:54120800-54123000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr5:54121200-54123000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr5:54121600-54127400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr5:54121800-54122800	Enhancers	Cortex derived primary cultured neurospheres	brain

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