Variant report

Variant	rs10484990
Chromosome Location	chr6:54548309-54548310
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:54547491..54552528-chr6:54710025..54715322,6	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:38)

rs_ID	r²[population]
rs10484987	1.00[CEU][hapmap];1.00[YRI][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10484992	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	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12192965	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12194292	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12194478	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12196439	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs12198783	1.00[CHB][hapmap];0.83[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];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12206020	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12208354	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12209646	1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs12211249	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12213260	1.00[CEU][hapmap];0.94[YRI][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1395638	0.81[EUR][1000 genomes]
rs1395639	0.81[EUR][1000 genomes]
rs1648216	1.00[JPT][hapmap]
rs17545576	1.00[CHB][hapmap]
rs17545776	1.00[CHB][hapmap]
rs2047827	1.00[CHB][hapmap]
rs66999431	0.98[EUR][1000 genomes]
rs6906762	0.80[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6927382	0.83[ASN][1000 genomes]
rs6930567	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6930882	0.81[EUR][1000 genomes]
rs6934575	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7743287	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7773204	0.88[CEU][hapmap];1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs7775692	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs925056	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]
rs9474982	0.83[ASN][1000 genomes]
rs9474983	0.83[ASN][1000 genomes]
rs9474993	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs9474994	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs9474998	1.00[CEU][hapmap]
rs9474999	1.00[CEU][hapmap]
rs9475000	1.00[CEU][hapmap]

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	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
2	esv1813954	chr6:54518364-54557296	Enhancers ZNF genes & repeats Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54546400-54548600	Enhancers	Hela-S3	cervix

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links