Variant report

Variant	rs10484992
Chromosome Location	chr6:54570937-54570938
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:54568574..54571267-chr6:54710555..54712360,2	MCF-7	breast:
2	chr6:54561977..54564257-chr6:54570191..54572297,2	MCF-7	breast:
3	chr6:54570566..54573467-chr6:54582462..54585489,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000168143	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10484987	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs10484990	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10948833	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12192965	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12194292	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12194478	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12196439	1.00[CEU][hapmap]
rs12198783	1.00[CHB][hapmap];0.89[ASN][1000 genomes]
rs12205262	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12205849	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12206020	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12208354	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12209646	1.00[CHB][hapmap];0.89[ASN][1000 genomes]
rs12211249	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12213260	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs17545576	1.00[CHB][hapmap]
rs17545776	1.00[CHB][hapmap]
rs2047827	1.00[CHB][hapmap]
rs66999431	0.93[EUR][1000 genomes]
rs6906762	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6927382	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs6930567	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6934575	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7743287	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7773204	0.88[CEU][hapmap];1.00[CHB][hapmap];0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs7775692	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs925056	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9474982	0.89[ASN][1000 genomes]
rs9474983	0.89[ASN][1000 genomes]
rs9474993	1.00[CEU][hapmap]
rs9474994	1.00[CEU][hapmap]
rs9474998	1.00[CEU][hapmap]
rs9474999	1.00[CEU][hapmap]
rs9475000	1.00[CEU][hapmap]

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:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54564200-54571000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
2	chr6:54564400-54575200	Weak transcription	Fetal Lung	lung
3	chr6:54565400-54575400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr6:54570000-54571400	Enhancers	Fetal Intestine Small	intestine
5	chr6:54570800-54571200	Enhancers	Stomach Mucosa	stomach
6	chr6:54570800-54572400	Enhancers	HUES6 Cell Line	embryonic stem cell
7	chr6:54570800-54572600	Enhancers	HUES48 Cell Line	embryonic stem cell
8	chr6:54570800-54572600	Enhancers	iPS-18 Cell Line	embryonic stem cell

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