Variant report

Variant	rs1552380
Chromosome Location	chr8:50852915-50852916
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	chr8:50851071..50853810-chr8:50856546..50858320,2	MCF-7	breast:

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10112818	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10216383	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10504093	0.88[JPT][hapmap];0.80[ASN][1000 genomes]
rs10957710	0.92[CHB][hapmap]
rs1157932	0.89[JPT][hapmap];0.80[ASN][1000 genomes]
rs11773979	0.83[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs12543434	0.85[CEU][hapmap]
rs12549981	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12679386	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13252824	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13264385	0.89[JPT][hapmap];0.82[ASN][1000 genomes]
rs13266009	1.00[CHB][hapmap];0.88[JPT][hapmap]
rs13271446	0.85[CEU][hapmap]
rs1484806	0.82[CHB][hapmap]
rs1486256	0.82[CHB][hapmap]
rs1486258	0.88[JPT][hapmap];0.83[ASN][1000 genomes]
rs1552316	0.82[CHB][hapmap]
rs1601298	0.82[CHB][hapmap]
rs1843607	0.85[AFR][1000 genomes]
rs1973259	0.82[CHB][hapmap]
rs2054743	0.82[CHB][hapmap]
rs2170953	0.88[JPT][hapmap];0.83[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs2385554	0.88[JPT][hapmap];0.81[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs2385696	0.89[JPT][hapmap];0.80[ASN][1000 genomes]
rs2385697	0.89[JPT][hapmap];0.83[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs2385699	0.82[CHB][hapmap]
rs2449961	0.80[ASN][1000 genomes]
rs318851	0.88[JPT][hapmap]
rs318853	0.88[JPT][hapmap];0.80[ASN][1000 genomes]
rs36160411	0.92[AFR][1000 genomes]
rs3812424	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3812426	0.89[JPT][hapmap];0.80[ASN][1000 genomes]
rs4144735	0.82[CHB][hapmap]
rs4460388	0.89[JPT][hapmap]
rs4873120	0.88[JPT][hapmap];0.83[ASN][1000 genomes]
rs55780592	0.80[ASN][1000 genomes]
rs62503966	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6472838	0.80[ASN][1000 genomes]
rs6472839	0.81[ASN][1000 genomes]
rs6991925	0.96[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7828900	0.81[ASN][1000 genomes]
rs923060	0.89[JPT][hapmap];0.84[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs931293	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs9643685	0.86[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs9643689	0.91[CHB][hapmap];0.82[JPT][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	esv3353749	chr8:50530807-51139242	Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv916392	chr8:50827638-51395140	Enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:50838600-50854400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr8:50838800-50853200	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr8:50848800-50857800	Weak transcription	iPS-18 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links