Variant report

Variant	rs6102853
Chromosome Location	chr20:41113650-41113651
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:41083008..41085007-chr20:41112917..41114827,2	MCF-7	breast:
2	chr20:41106434..41108888-chr20:41112524..41115086,2	MCF-7	breast:

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs1569908	0.84[CHB][hapmap];0.88[JPT][hapmap]
rs2205939	0.83[CEU][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs58811143	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6016816	0.83[CHB][hapmap]
rs6072758	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6072759	0.83[CEU][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6072767	0.83[CEU][hapmap]
rs6072768	0.82[CEU][hapmap]
rs6072771	0.83[CEU][hapmap];0.88[EUR][1000 genomes]
rs6093656	1.00[CHB][hapmap];0.94[JPT][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6093657	0.83[CEU][hapmap];1.00[YRI][hapmap];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6093669	0.83[CEU][hapmap];0.81[EUR][1000 genomes]
rs6093671	1.00[YRI][hapmap]
rs6093672	0.84[CHB][hapmap];0.88[JPT][hapmap]
rs6093673	0.84[CHB][hapmap];0.82[JPT][hapmap]
rs6102854	0.81[YRI][hapmap]
rs6102883	1.00[YRI][hapmap]
rs6102887	1.00[YRI][hapmap]
rs6102891	1.00[YRI][hapmap]
rs61527253	0.80[ASN][1000 genomes]
rs66464743	0.81[EUR][1000 genomes]
rs66955877	0.88[AFR][1000 genomes];0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs8121624	0.91[YRI][hapmap]
rs9631147	1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2751913	chr20:40422982-41269321	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
2	nsv833987	chr20:41007663-41184914	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region	9 gene(s)	inside rSNPs	diseases
3	nsv1059852	chr20:41087948-41217672	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv544276	chr20:41087948-41217672	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv1063422	chr20:41095537-41114340	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv1055546	chr20:41102999-41260749	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	esv1807209	chr20:41107678-41154898	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:41112000-41116200	Enhancers	Primary monocytes fromperipheralblood	blood
2	chr20:41112200-41113800	Enhancers	Fetal Muscle Trunk	muscle
3	chr20:41112200-41114000	Enhancers	Brain Hippocampus Middle	brain
4	chr20:41112400-41114000	Enhancers	Breast Myoepithelial Primary Cells	Breast
5	chr20:41112400-41114400	Enhancers	Fetal Muscle Leg	muscle
6	chr20:41112400-41115200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
7	chr20:41112600-41113800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr20:41112800-41114600	Enhancers	Cortex derived primary cultured neurospheres	brain
9	chr20:41113000-41114800	Enhancers	Fetal Kidney	kidney
10	chr20:41113200-41113800	Enhancers	Duodenum Smooth Muscle	Duodenum
11	chr20:41113400-41113800	Flanking Active TSS	Adipose Nuclei	Adipose
12	chr20:41113400-41114200	Weak transcription	Brain Germinal Matrix	brain
13	chr20:41113400-41114400	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr20:41113600-41113800	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr20:41113600-41113800	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr20:41113600-41113800	Enhancers	Left Ventricle	heart
17	chr20:41113600-41125600	Weak transcription	Pancreas	Pancrea

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