Variant report

Variant	rs6098011
Chromosome Location	chr20:53097346-53097347
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr20:53090363..53095555-chr20:53096070..53104073,10	MCF-7	breast:
2	chr20:53084969..53087855-chr20:53094880..53097639,2	MCF-7	breast:
3	chr20:53096009..53097873-chr20:53102491..53104173,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000101134	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs11907464	0.82[EUR][1000 genomes]
rs13040866	0.82[EUR][1000 genomes]
rs13042185	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs13042986	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs13044898	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1330017	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs16999643	0.89[CEU][hapmap]
rs34310366	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs34433522	0.95[EUR][1000 genomes]
rs34502501	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs34616206	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs34683517	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs35269605	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs35276316	0.97[EUR][1000 genomes]
rs35321528	0.86[EUR][1000 genomes]
rs6014019	0.89[CEU][hapmap]
rs6014020	0.89[CEU][hapmap]
rs6014027	1.00[CEU][hapmap]
rs6014032	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs6023244	0.88[CEU][hapmap]
rs6023245	0.88[CEU][hapmap]
rs6023251	0.88[CEU][hapmap]
rs6023254	0.89[CEU][hapmap]
rs6023269	0.82[EUR][1000 genomes]
rs6023270	0.82[EUR][1000 genomes]
rs6023272	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs6023273	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6023274	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs6023275	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs6023276	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs6023291	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs6023307	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs6023309	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs6091886	0.88[CEU][hapmap]
rs6091890	0.81[EUR][1000 genomes]
rs6091891	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs6098005	0.84[EUR][1000 genomes]
rs6098006	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs6098007	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs6098008	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs6098009	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs6098013	0.95[YRI][hapmap]
rs66631852	0.87[EUR][1000 genomes]
rs67687183	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7264375	0.85[YRI][hapmap]
rs922398	1.00[CEU][hapmap];0.97[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:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:53093400-53106400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr20:53093800-53099000	Weak transcription	Ovary	ovary
3	chr20:53094000-53111600	Weak transcription	Fetal Muscle Leg	muscle
4	chr20:53096000-53097400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr20:53096200-53103000	Weak transcription	Osteobl	bone
6	chr20:53096400-53097400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr20:53096600-53098000	Weak transcription	Fetal Brain Female	brain
8	chr20:53096600-53099000	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr20:53097200-53097400	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
10	chr20:53097200-53099000	Weak transcription	Fetal Brain Male	brain
11	chr20:53097200-53099200	Weak transcription	iPS-20b Cell Line	embryonic stem cell

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