Variant report

Variant	rs2207885
Chromosome Location	chr20:41160601-41160602
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:41158587..41161005-chr20:41184135..41185897,2	MCF-7	breast:
2	chr20:41150606..41154856-chr20:41155913..41160974,4	MCF-7	breast:

Extended variants
information (count: 32 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12106011	0.82[ASN][1000 genomes]
rs12106102	0.84[ASN][1000 genomes]
rs2207886	0.81[JPT][hapmap]
rs2867484	0.89[YRI][hapmap]
rs6016816	0.87[CEU][hapmap]
rs6030291	0.87[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap]
rs6072767	0.92[CHB][hapmap];0.93[JPT][hapmap]
rs6072768	0.92[CHB][hapmap];1.00[JPT][hapmap]
rs6072770	1.00[CEU][hapmap];0.91[CHB][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6072771	0.92[CHB][hapmap];0.93[ASN][1000 genomes]
rs6072775	0.83[CHB][hapmap];0.93[JPT][hapmap];0.87[ASN][1000 genomes]
rs6072776	0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6093657	0.81[JPT][hapmap]
rs6093670	0.82[AMR][1000 genomes]
rs6093672	0.88[CEU][hapmap];0.80[YRI][hapmap];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6102880	1.00[CEU][hapmap];0.91[CHB][hapmap]
rs6102888	0.87[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap]
rs6102894	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6102895	0.91[CHB][hapmap];0.92[ASN][1000 genomes]
rs6102896	0.80[ASN][1000 genomes]
rs6102904	0.83[CHB][hapmap];0.89[ASN][1000 genomes]
rs61055710	0.85[ASN][1000 genomes]
rs66464743	0.90[ASN][1000 genomes]
rs8115216	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 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	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
6	nsv1064253	chr20:41120425-41379706	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Active TSS	TF binding region Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
7	nsv1061449	chr20:41126720-41212178	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
8	nsv586006	chr20:41157707-41290936	Enhancers Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Weak transcription	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:41158800-41161000	Enhancers	Fetal Brain Male	brain
2	chr20:41158800-41161200	Enhancers	Fetal Brain Female	brain
3	chr20:41159000-41161000	Enhancers	Pancreas	Pancrea
4	chr20:41159000-41161200	Enhancers	Brain Germinal Matrix	brain
5	chr20:41159200-41160800	Enhancers	Breast Myoepithelial Primary Cells	Breast
6	chr20:41159200-41161000	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr20:41159200-41161000	Enhancers	Cortex derived primary cultured neurospheres	brain
8	chr20:41159200-41161200	Enhancers	Adipose Nuclei	Adipose
9	chr20:41159400-41160800	Enhancers	Brain Hippocampus Middle	brain
10	chr20:41159400-41161000	Enhancers	Brain Inferior Temporal Lobe	brain
11	chr20:41159400-41161000	Enhancers	Fetal Muscle Leg	muscle
12	chr20:41159400-41161000	Enhancers	Monocytes-CD14+_RO01746	blood
13	chr20:41159800-41160800	Enhancers	Colon Smooth Muscle	Colon
14	chr20:41159800-41161000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr20:41160000-41160800	Enhancers	Brain Cingulate Gyrus	brain
16	chr20:41160000-41160800	Enhancers	Fetal Muscle Trunk	muscle
17	chr20:41160000-41160800	Enhancers	Placenta	Placenta
18	chr20:41160000-41161000	Enhancers	GM12878-XiMat	blood
19	chr20:41160200-41161000	Enhancers	Brain Anterior Caudate	brain
20	chr20:41160200-41161000	Enhancers	Fetal Thymus	thymus
21	chr20:41160400-41160800	Enhancers	Brain Substantia Nigra	brain
22	chr20:41160600-41161200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links