Variant report

Variant	rs10053179
Chromosome Location	chr5:42109207-42109208
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	chr5:42108690..42109427-chr5:42127456..42127968,2	MCF-7	breast:

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10052226	1.00[CHD][hapmap]
rs10077609	0.85[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1073273	0.85[AFR][1000 genomes]
rs13436920	1.00[CHD][hapmap]
rs1501513	0.81[AMR][1000 genomes]
rs1501516	0.82[AFR][1000 genomes]
rs1501517	0.85[AFR][1000 genomes]
rs1501528	0.99[EUR][1000 genomes]
rs1827330	0.81[AFR][1000 genomes]
rs1995351	0.81[AMR][1000 genomes]
rs2134102	0.85[AFR][1000 genomes]
rs276233	0.86[EUR][1000 genomes]
rs276234	0.86[EUR][1000 genomes]
rs276235	0.86[EUR][1000 genomes]
rs276237	0.86[EUR][1000 genomes]
rs276238	0.86[EUR][1000 genomes]
rs276239	0.86[EUR][1000 genomes]
rs276240	0.86[EUR][1000 genomes]
rs276241	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs276242	0.86[EUR][1000 genomes]
rs276243	0.86[EUR][1000 genomes]
rs276246	0.87[EUR][1000 genomes]
rs276270	0.96[EUR][1000 genomes]
rs276277	0.97[EUR][1000 genomes]
rs276289	0.91[CEU][hapmap]
rs276290	0.91[CEU][hapmap]
rs276291	0.91[CEU][hapmap]
rs276315	0.83[GIH][hapmap];0.83[TSI][hapmap]
rs28797309	0.80[EUR][1000 genomes]
rs3913459	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs4401612	0.83[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs4957203	0.81[AMR][1000 genomes]
rs4957204	0.87[AFR][1000 genomes]
rs666080	0.87[EUR][1000 genomes]
rs905098	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs905099	0.99[EUR][1000 genomes]
rs9885117	1.00[CHD][hapmap]

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	nsv933208	chr5:41879946-42876624	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	112 gene(s)	inside rSNPs	diseases
2	nsv492147	chr5:41902086-42896162	Enhancers Flanking Active TSS Active TSS Genic enhancers Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	113 gene(s)	inside rSNPs	diseases
3	esv1843569	chr5:42008999-42128184	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv1032171	chr5:42015138-42220940	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
5	nsv462125	chr5:42019110-42192620	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
6	nsv597885	chr5:42019110-42192620	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:42108400-42109600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr5:42109000-42110200	Enhancers	iPS-18 Cell Line	embryonic stem cell
3	chr5:42109200-42109800	Enhancers	Hela-S3	cervix

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