Variant report

Variant	rs13088227
Chromosome Location	chr3:88669670-88669671
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	chr3:88669439..88670359-chr3:89148166..89148816,3	MCF-7	breast:

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10446361	0.92[AMR][1000 genomes]
rs13060621	0.85[AMR][1000 genomes]
rs13063905	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13067884	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13068692	0.92[AMR][1000 genomes]
rs13073423	0.92[AMR][1000 genomes]
rs13074030	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13075366	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13081387	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13082178	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13082894	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13083673	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13085293	0.92[AMR][1000 genomes]
rs13089927	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs13090780	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13090965	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13100049	0.92[AMR][1000 genomes]
rs13100970	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17025980	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35129035	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs36031826	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6551352	0.80[AMR][1000 genomes]
rs6768591	0.80[AMR][1000 genomes]
rs71628821	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs955291	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9820989	0.92[AMR][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	nsv916330	chr3:88083580-88884125	Genic enhancers Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv1014703	chr3:88623532-88733631	Enhancers Weak transcription ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:88667800-88675400	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr3:88668000-88669800	Weak transcription	Brain Germinal Matrix	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links