Variant report

Variant	rs6023291
Chromosome Location	chr20:53109839-53109840
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr20:53106824..53109848-chr20:53112432..53115468,3	MCF-7	breast:
2	chr20:53107696..53109879-chr20:53110409..53112954,2	K562	blood:
3	chr20:53082818..53085398-chr20:53109115..53112066,2	MCF-7	breast:

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs12329481	0.88[CEU][hapmap]
rs13042185	1.00[CEU][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13042986	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs13044898	1.00[CEU][hapmap];0.92[TSI][hapmap];0.91[EUR][1000 genomes]
rs1330017	1.00[CEU][hapmap]
rs16999643	0.88[CEU][hapmap]
rs2297153	1.00[ASN][1000 genomes]
rs34310366	0.91[EUR][1000 genomes]
rs34433522	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34502501	0.91[EUR][1000 genomes]
rs34616206	0.90[EUR][1000 genomes]
rs34683517	0.91[EUR][1000 genomes]
rs34803565	1.00[ASN][1000 genomes]
rs35269605	0.96[EUR][1000 genomes]
rs35276316	0.91[EUR][1000 genomes]
rs35321528	0.97[EUR][1000 genomes]
rs6014019	0.88[CEU][hapmap]
rs6014020	0.88[CEU][hapmap]
rs6014027	1.00[CEU][hapmap]
rs6014032	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.90[MEX][hapmap];0.84[TSI][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6023244	0.88[CEU][hapmap]
rs6023245	0.88[CEU][hapmap]
rs6023251	0.88[CEU][hapmap]
rs6023254	0.88[CEU][hapmap]
rs6023272	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs6023273	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs6023274	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6023275	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs6023276	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs6023278	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs6023295	1.00[ASN][1000 genomes]
rs6023307	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6023309	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6023323	1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[TSI][hapmap];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6091886	0.88[CEU][hapmap]
rs6091891	1.00[CEU][hapmap];1.00[GIH][hapmap];0.92[TSI][hapmap];0.91[EUR][1000 genomes]
rs6091895	1.00[ASN][1000 genomes]
rs6098006	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs6098007	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs6098008	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs6098009	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.89[MEX][hapmap];0.92[TSI][hapmap];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6098011	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs66631852	0.96[EUR][1000 genomes]
rs67687183	0.91[EUR][1000 genomes]
rs922398	1.00[CEU][hapmap];1.00[GIH][hapmap];0.89[MEX][hapmap];0.92[TSI][hapmap];0.91[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	chr20:53094000-53111600	Weak transcription	Fetal Muscle Leg	muscle
2	chr20:53097400-53115200	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr20:53098400-53114000	Weak transcription	Fetal Brain Female	brain
4	chr20:53100600-53110600	Weak transcription	Fetal Brain Male	brain
5	chr20:53102400-53127200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr20:53103600-53118400	Weak transcription	Osteobl	bone
7	chr20:53106600-53115600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr20:53107400-53118400	Weak transcription	NHDF-Ad	bronchial
9	chr20:53107600-53110600	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr20:53108200-53126600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr20:53108200-53127200	Weak transcription	Ovary	ovary

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