Variant report

Variant	rs656988
Chromosome Location	chr6:56294332-56294333
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:56293649..56295565-chr6:56296987..56298502,2	MCF-7	breast:
2	chr6:56291814..56294576-chr6:56361016..56362950,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000266793	Chromatin interaction
ENSG00000151914	Chromatin interaction
ENSG00000220666	Chromatin interaction

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs11753813	0.82[CHB][hapmap]
rs11758339	0.81[CEU][hapmap];0.88[CHB][hapmap];0.81[JPT][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11759493	0.88[CHB][hapmap]
rs12174955	0.82[CEU][hapmap];0.88[CHB][hapmap];0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs13204556	0.84[AMR][1000 genomes]
rs1535612	0.88[CHB][hapmap]
rs1547625	0.94[CHB][hapmap];0.88[JPT][hapmap];0.85[ASN][1000 genomes]
rs1570492	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17825773	0.94[CHB][hapmap];0.82[JPT][hapmap];0.85[ASN][1000 genomes]
rs2273972	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2273973	0.88[CHB][hapmap]
rs2273974	0.88[CHB][hapmap]
rs2397226	0.88[CHB][hapmap]
rs2894837	0.81[CHB][hapmap]
rs34954984	0.84[AMR][1000 genomes]
rs4236141	0.81[CHB][hapmap]
rs4283892	0.87[CHB][hapmap]
rs4715625	0.88[CHB][hapmap]
rs58705220	0.85[ASN][1000 genomes]
rs594435	0.85[CHB][hapmap];0.92[JPT][hapmap];0.81[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs606894	0.81[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs607271	0.81[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs6459161	0.82[CHB][hapmap];0.82[EUR][1000 genomes]
rs656550	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs657057	0.94[CHB][hapmap];0.88[JPT][hapmap];0.89[ASN][1000 genomes]
rs6911307	0.87[ASN][1000 genomes]
rs6911502	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6914325	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6916287	0.93[ASN][1000 genomes]
rs6927258	0.88[CHB][hapmap];0.85[EUR][1000 genomes]
rs72877350	0.84[AMR][1000 genomes]
rs7755220	0.92[EUR][1000 genomes]
rs7762629	0.81[CHB][hapmap]
rs9296848	0.88[CHB][hapmap]
rs9349822	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9349823	0.87[CHB][hapmap];0.85[EUR][1000 genomes]
rs9349825	0.82[AMR][1000 genomes]
rs9357918	0.89[ASN][1000 genomes]
rs9370531	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9370533	0.88[CHB][hapmap]
rs9370534	0.81[CEU][hapmap];0.88[CHB][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9370535	0.82[CHB][hapmap];0.84[AMR][1000 genomes]
rs9382631	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9396210	0.93[ASN][1000 genomes]
rs9396211	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9396213	0.88[CHB][hapmap]
rs9396214	0.88[CHB][hapmap];0.82[AMR][1000 genomes]
rs9396215	0.82[AMR][1000 genomes]
rs9464388	0.84[ASN][1000 genomes]

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	nsv491933	chr6:56177722-57171010	Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv830666	chr6:56243743-56419599	Genic enhancers Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:0 , 50 per page) page:

No data

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links