Variant report

Variant	rs62485390
Chromosome Location	chr7:140662686-140662687
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:140661687..140663739-chr7:140664738..140669110,3	MCF-7	breast:

Extended variants
information (count: 72 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:69)

rs_ID	r²[population]
rs1009772	0.91[EUR][1000 genomes]
rs10281975	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10488098	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11983228	0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13438418	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1476868	1.00[EUR][1000 genomes]
rs17622717	1.00[EUR][1000 genomes]
rs17623204	1.00[EUR][1000 genomes]
rs17695341	1.00[EUR][1000 genomes]
rs17695623	1.00[EUR][1000 genomes]
rs17695707	0.98[EUR][1000 genomes]
rs17695935	0.93[EUR][1000 genomes]
rs17695995	1.00[EUR][1000 genomes]
rs1968140	0.95[EUR][1000 genomes]
rs2079827	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs246739	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2930322	0.84[EUR][1000 genomes]
rs41282721	0.95[EUR][1000 genomes]
rs55720380	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs55875248	1.00[EUR][1000 genomes]
rs56055746	0.95[EUR][1000 genomes]
rs56115934	0.91[EUR][1000 genomes]
rs56347011	0.95[EUR][1000 genomes]
rs57143942	0.95[EUR][1000 genomes]
rs57620608	0.95[EUR][1000 genomes]
rs57675404	1.00[EUR][1000 genomes]
rs57725920	0.83[EUR][1000 genomes]
rs57846481	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs58901822	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs59183598	1.00[EUR][1000 genomes]
rs59232128	1.00[EUR][1000 genomes]
rs59477283	1.00[EUR][1000 genomes]
rs59816436	0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs60081231	1.00[EUR][1000 genomes]
rs60251368	1.00[EUR][1000 genomes]
rs62484288	1.00[EUR][1000 genomes]
rs62484291	1.00[EUR][1000 genomes]
rs62484294	1.00[EUR][1000 genomes]
rs62484295	0.98[EUR][1000 genomes]
rs62484299	1.00[EUR][1000 genomes]
rs62484300	1.00[EUR][1000 genomes]
rs62485366	1.00[EUR][1000 genomes]
rs62485368	1.00[EUR][1000 genomes]
rs62485369	0.95[EUR][1000 genomes]
rs62485370	1.00[EUR][1000 genomes]
rs62485372	1.00[EUR][1000 genomes]
rs62485377	0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62485379	0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62485383	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62485391	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62485452	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62485453	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62487899	0.86[EUR][1000 genomes]
rs62487900	0.91[EUR][1000 genomes]
rs62487904	0.82[EUR][1000 genomes]
rs62487906	0.82[EUR][1000 genomes]
rs62487912	0.86[EUR][1000 genomes]
rs62487913	0.82[EUR][1000 genomes]
rs62487914	0.95[EUR][1000 genomes]
rs62487916	0.95[EUR][1000 genomes]
rs62487918	0.95[EUR][1000 genomes]
rs62487920	0.95[EUR][1000 genomes]
rs62487921	0.95[EUR][1000 genomes]
rs62487923	0.95[EUR][1000 genomes]
rs71645962	0.95[EUR][1000 genomes]
rs71645993	0.86[EUR][1000 genomes]
rs73492596	0.91[EUR][1000 genomes]
rs7806794	0.82[EUR][1000 genomes]
rs7810757	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1017980	chr7:140601863-140721368	Flanking Active TSS Active TSS Weak transcription Enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv1030195	chr7:140615828-140746345	Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
3	nsv1026448	chr7:140636599-140716829	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs62485390	BRAF	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:140657200-140669000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links