Variant report

Variant	rs6022891
Chromosome Location	chr20:52599807-52599808
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:12)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

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

No.	Distal block	Cell Line	Cell type
1	chr20:52599284..52600198-chr20:52811456..52812445,5	MCF-7	breast:
2	chr20:52599104..52600037-chr20:52811545..52812537,13	MCF-7	breast:
3	chr10:123469862..123471363-chr20:52598792..52600401,2	MCF-7	breast:
4	chr20:52598102..52600086-chr9:140203803..140205812,2	MCF-7	breast:
5	chr20:52599260..52600113-chr20:52765487..52766240,3	MCF-7	breast:
6	chr20:52278061..52278601-chr20:52599248..52600106,2	MCF-7	breast:
7	chr20:52599220..52600148-chr20:52765356..52766212,6	MCF-7	breast:
8	chr20:52599179..52599997-chr20:52811545..52812537,5	MCF-7	breast:
9	chr20:52599220..52600094-chr20:52765356..52766214,8	MCF-7	breast:
10	chr20:52599528..52600097-chr20:52739949..52740811,2	MCF-7	breast:
11	chr20:52599185..52600133-chr20:52739769..52740826,4	MCF-7	breast:
12	chr20:52599136..52600133-chr20:52739769..52740911,9	MCF-7	breast:

No data

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs16998695	0.89[AMR][1000 genomes]
rs208365	0.82[YRI][hapmap]
rs208381	0.83[YRI][hapmap]
rs2276493	0.89[AMR][1000 genomes]
rs2870302	0.89[AMR][1000 genomes]
rs56254566	0.89[AMR][1000 genomes]
rs56358601	0.89[AMR][1000 genomes]
rs599086	1.00[CEU][hapmap]
rs6013852	1.00[CEU][hapmap]
rs6013853	1.00[CEU][hapmap]
rs6013858	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs6013860	0.81[YRI][hapmap];0.89[AFR][1000 genomes]
rs6013862	0.89[AFR][1000 genomes]
rs6013864	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs6013865	0.89[AFR][1000 genomes]
rs6013866	1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs6013867	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs6022866	1.00[CEU][hapmap]
rs6022882	1.00[CEU][hapmap]
rs6022892	1.00[YRI][hapmap];0.93[AFR][1000 genomes]
rs6022893	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs6022894	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs6022896	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs6022897	0.89[AFR][1000 genomes]
rs6022903	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs6022904	0.89[AFR][1000 genomes]
rs6022905	0.96[YRI][hapmap];0.89[AFR][1000 genomes]
rs6022906	0.89[AFR][1000 genomes]
rs6022907	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs6022908	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs6022909	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs6022910	0.89[AFR][1000 genomes]
rs6022911	0.93[AFR][1000 genomes]
rs60878965	0.89[AMR][1000 genomes]
rs6091785	1.00[CEU][hapmap]
rs6091790	1.00[CEU][hapmap]
rs6097705	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs6097708	0.89[AMR][1000 genomes]
rs6097710	0.89[AMR][1000 genomes]
rs6097712	0.89[AMR][1000 genomes]
rs7260720	1.00[CEU][hapmap]
rs7271177	0.89[AMR][1000 genomes]
rs7274783	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs73914443	0.89[AMR][1000 genomes]
rs740049	0.96[YRI][hapmap];0.89[AFR][1000 genomes]
rs740373	0.89[AMR][1000 genomes]
rs878868	0.96[YRI][hapmap];0.89[AFR][1000 genomes]
rs881206	0.89[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv34060	chr20:52251863-52702186	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	296 gene(s)	inside rSNPs	diseases
2	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	chr20:52566400-52644800	Weak transcription	Gastric	stomach
2	chr20:52580800-52600000	Weak transcription	Stomach Mucosa	stomach
3	chr20:52581200-52610600	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr20:52593000-52600800	Weak transcription	Brain Cingulate Gyrus	brain
5	chr20:52593200-52601000	Weak transcription	Brain Substantia Nigra	brain
6	chr20:52596400-52601400	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr20:52597600-52601000	Weak transcription	Fetal Stomach	stomach
8	chr20:52599600-52600200	Enhancers	Brain Hippocampus Middle	brain
9	chr20:52599600-52602000	Strong transcription	Rectal Mucosa Donor 29	rectum
10	chr20:52599800-52600200	Genic enhancers	HSMMtube	muscle
11	chr20:52599800-52601200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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