Variant report

Variant	rs56878245
Chromosome Location	chr2:58209343-58209344
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:58208443..58211006-chr2:58214388..58216999,2	MCF-7	breast:

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs1518402	0.95[AFR][1000 genomes]
rs17049347	1.00[AMR][1000 genomes]
rs17049370	1.00[AMR][1000 genomes]
rs17049374	1.00[AMR][1000 genomes]
rs55925609	1.00[AMR][1000 genomes]
rs59264390	1.00[AMR][1000 genomes]
rs59299963	1.00[AMR][1000 genomes]
rs59871174	1.00[AMR][1000 genomes]
rs59983111	1.00[AFR][1000 genomes]
rs60712586	1.00[AFR][1000 genomes]
rs60912631	1.00[AMR][1000 genomes]
rs61126591	1.00[AMR][1000 genomes]
rs61415878	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6741122	1.00[AMR][1000 genomes]
rs73942251	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73942258	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73942277	1.00[AFR][1000 genomes]
rs73942281	1.00[AMR][1000 genomes]
rs73944812	1.00[AMR][1000 genomes]
rs73944819	1.00[AMR][1000 genomes]
rs73944823	1.00[AMR][1000 genomes]
rs73944826	1.00[AMR][1000 genomes]
rs73944827	1.00[AMR][1000 genomes]
rs73944828	1.00[AMR][1000 genomes]
rs7587116	1.00[AMR][1000 genomes]
rs7587229	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv874196	chr2:57946148-58220320	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv834159	chr2:58101262-58283655	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
3	nsv525988	chr2:58161520-58427786	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
4	nsv874200	chr2:58163178-58262016	Active TSS Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Genic enhancers	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv458041	chr2:58196110-58237724	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv582096	chr2:58196110-58237724	ZNF genes & repeats Enhancers Active TSS Weak transcription Flanking Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:58201000-58212200	Weak transcription	Primary B cells from cord blood	blood
2	chr2:58207600-58209600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr2:58208000-58209600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr2:58208000-58209600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr2:58208000-58209600	Enhancers	Osteobl	bone
6	chr2:58209000-58209600	Enhancers	Muscle Satellite Cultured Cells	--
7	chr2:58209200-58209600	Enhancers	Breast Myoepithelial Primary Cells	Breast

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