Variant report

Variant	rs13042986
Chromosome Location	chr20:53119333-53119334
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr20:53116883..53119572-chr20:53164546..53167023,3	MCF-7	breast:
2	chr20:53089611..53092469-chr20:53118519..53121399,2	MCF-7	breast:
3	chr20:52826695..52829423-chr20:53117360..53120091,2	MCF-7	breast:
4	chr20:53119109..53121985-chr20:53124736..53126453,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000101134	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs13042185	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs13044898	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1330017	1.00[CEU][hapmap]
rs16999643	0.89[CEU][hapmap]
rs34310366	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34433522	0.91[EUR][1000 genomes]
rs34502501	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34616206	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs34683517	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35269605	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs35276316	0.90[EUR][1000 genomes]
rs35321528	0.96[EUR][1000 genomes]
rs36060321	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6014019	0.89[CEU][hapmap]
rs6014020	0.89[CEU][hapmap]
rs6014027	1.00[CEU][hapmap]
rs6014032	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs6023244	0.88[CEU][hapmap]
rs6023245	0.88[CEU][hapmap]
rs6023251	0.88[CEU][hapmap]
rs6023254	0.89[CEU][hapmap]
rs6023272	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs6023273	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs6023274	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs6023275	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs6023276	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs6023291	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs6023307	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs6023309	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs6091886	0.88[CEU][hapmap]
rs6091891	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs6098006	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs6098007	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs6098008	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs6098009	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs6098011	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs66631852	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs67687183	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73142922	0.80[AMR][1000 genomes]
rs73142924	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs73142925	0.86[AMR][1000 genomes]
rs922398	1.00[CEU][hapmap];0.90[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv586224	chr20:52474850-53279490	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	338 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:53102400-53127200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr20:53108200-53126600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr20:53108200-53127200	Weak transcription	Ovary	ovary
4	chr20:53111200-53132400	Weak transcription	Skeletal Muscle Male	skeletal muscle
5	chr20:53111600-53127400	Weak transcription	Skeletal Muscle Female	skeletal muscle
6	chr20:53115000-53130600	Weak transcription	Fetal Brain Female	brain
7	chr20:53116000-53123000	Weak transcription	NHLF	lung
8	chr20:53116200-53120200	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr20:53116400-53126200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
10	chr20:53116400-53127200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr20:53118200-53119600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr20:53118800-53132600	Weak transcription	NHDF-Ad	bronchial

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