Variant report

Variant	rs925057
Chromosome Location	chr6:54575349-54575350
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:54574192..54576279-chr6:54583056..54585185,2	MCF-7	breast:
2	chr6:54573340..54575837-chr6:54587895..54589989,2	MCF-7	breast:
3	chr6:54574486..54577143-chr6:54710389..54712884,2	MCF-7	breast:
4	chr6:54571436..54575650-chr6:54710321..54713742,4	MCF-7	breast:
5	chr6:54574954..54578587-chr6:54580352..54583856,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000168143	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs1039693	0.82[JPT][hapmap]
rs10447377	0.81[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10807475	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10948830	0.80[ASN][1000 genomes]
rs10948842	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11757171	0.81[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11964037	0.84[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs11967781	0.84[EUR][1000 genomes]
rs12211545	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12215844	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13193002	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs13200833	0.87[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs13217514	0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs1359009	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1911508	1.00[ASN][1000 genomes]
rs2089411	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2174735	0.98[ASN][1000 genomes]
rs2297804	0.80[CHB][hapmap];0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs6459021	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs6899853	0.80[CHB][hapmap];0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs6908136	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6918290	0.96[ASN][1000 genomes]
rs7746312	0.85[EUR][1000 genomes]
rs9296764	0.85[EUR][1000 genomes]
rs9464114	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9464116	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9474940	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9474943	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9474944	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9474965	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9474972	0.82[JPT][hapmap];0.83[ASN][1000 genomes]
rs9474973	0.89[CHB][hapmap];1.00[ASN][1000 genomes]
rs9474974	0.81[ASN][1000 genomes]
rs9474977	0.98[ASN][1000 genomes]
rs9474987	0.98[ASN][1000 genomes]
rs9474991	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs981682	0.80[CHB][hapmap];0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs9885668	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs995951	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][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	nsv885900	chr6:54517968-54852462	Active TSS Bivalent Enhancer Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54565400-54575400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr6:54571400-54579800	Weak transcription	Fetal Intestine Small	intestine
3	chr6:54575000-54576000	Enhancers	Brain Cingulate Gyrus	brain
4	chr6:54575200-54575600	Enhancers	Brain Hippocampus Middle	brain
5	chr6:54575200-54575600	Enhancers	Stomach Mucosa	stomach
6	chr6:54575200-54575800	Enhancers	Fetal Lung	lung
7	chr6:54575200-54575800	Enhancers	Fetal Muscle Leg	muscle
8	chr6:54575200-54576000	Enhancers	Brain Substantia Nigra	brain
9	chr6:54575200-54579600	Weak transcription	Pancreatic Islets	Pancreatic Islet

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