Variant report

Variant	rs6014020
Chromosome Location	chr20:53069985-53069986
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr20:45985113..45986794-chr20:53069678..53072286,2	MCF-7	breast:
2	chr20:53067710..53071026-chr20:53071242..53075338,6	MCF-7	breast:
3	chr20:52835069..52840886-chr20:53069895..53074543,8	MCF-7	breast:
4	chr20:53069456..53072072-chr20:53072246..53075486,5	MCF-7	breast:
5	chr20:53061996..53063880-chr20:53065895..53070016,4	MCF-7	breast:
6	chr20:52972070..52973740-chr20:53068200..53071039,2	MCF-7	breast:
7	chr20:53068334..53071090-chr20:53089202..53090759,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000101040	Chromatin interaction

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs12329481	0.89[CEU][hapmap];0.80[EUR][1000 genomes]
rs13042185	0.88[CEU][hapmap]
rs13042986	0.89[CEU][hapmap]
rs13044898	0.88[CEU][hapmap]
rs1330017	0.88[CEU][hapmap]
rs16999643	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs55665963	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs55957910	0.84[AMR][1000 genomes]
rs58143732	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6014019	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6014027	0.89[CEU][hapmap]
rs6014032	0.88[CEU][hapmap]
rs6023244	1.00[CEU][hapmap]
rs6023245	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs6023247	0.80[EUR][1000 genomes]
rs6023248	0.82[EUR][1000 genomes]
rs6023251	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6023253	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6023254	1.00[CEU][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6023258	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6023262	0.80[AMR][1000 genomes]
rs6023272	0.89[CEU][hapmap]
rs6023273	0.89[CEU][hapmap]
rs6023274	0.89[CEU][hapmap]
rs6023275	0.89[CEU][hapmap]
rs6023276	0.89[CEU][hapmap]
rs6023291	0.88[CEU][hapmap]
rs6023307	0.89[CEU][hapmap]
rs6023309	0.89[CEU][hapmap]
rs60780716	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6091886	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6091891	0.88[CEU][hapmap]
rs6097986	0.80[EUR][1000 genomes]
rs6097987	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6097988	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6097998	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6097999	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6098006	0.89[CEU][hapmap]
rs6098007	0.89[CEU][hapmap]
rs6098008	0.89[CEU][hapmap]
rs6098009	0.88[CEU][hapmap]
rs6098011	0.89[CEU][hapmap]
rs7264053	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7264143	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7271481	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7271579	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73141254	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73141258	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs922398	0.88[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 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
2	nsv834011	chr20:52858341-53086042	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	55 gene(s)	inside rSNPs	diseases
3	nsv834012	chr20:52921007-53097177	Flanking Active TSS Weak transcription Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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