Variant report

Variant	rs62465699
Chromosome Location	chr7:66304262-66304263
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:66302070..66304968-chr7:66306621..66309380,3	MCF-7	breast:

Extended variants
information (count: 122 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:117)

rs_ID	r²[population]
rs10499785	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs12531374	0.81[AMR][1000 genomes]
rs12531377	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs12531402	0.87[AMR][1000 genomes]
rs12532147	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs12532650	0.93[AMR][1000 genomes]
rs12532888	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs12533018	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs12533830	0.87[AMR][1000 genomes]
rs12533958	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs12535268	1.00[AMR][1000 genomes]
rs12535321	0.81[AMR][1000 genomes]
rs12536130	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs12537346	0.81[AMR][1000 genomes]
rs12537825	0.81[AMR][1000 genomes]
rs12537955	0.87[AMR][1000 genomes]
rs12538126	0.93[AMR][1000 genomes]
rs12538131	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs12539191	1.00[AFR][1000 genomes]
rs12539366	0.87[AMR][1000 genomes]
rs12539522	1.00[AFR][1000 genomes]
rs12539848	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs12540312	1.00[AMR][1000 genomes]
rs12540447	1.00[AMR][1000 genomes]
rs2091314	0.87[AMR][1000 genomes]
rs2279934	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs2293351	0.87[AMR][1000 genomes]
rs34758320	0.87[AMR][1000 genomes]
rs35279320	0.84[ASN][1000 genomes]
rs3735152	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs3735153	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs3757420	0.81[AMR][1000 genomes]
rs3778906	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs3778911	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs3800811	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs3800813	0.81[AMR][1000 genomes]
rs3800819	0.87[AMR][1000 genomes]
rs3823608	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs4717318	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4717320	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs4717323	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4717324	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4717329	0.87[AMR][1000 genomes]
rs4718393	0.81[AMR][1000 genomes]
rs4718394	0.81[AMR][1000 genomes]
rs4718395	0.81[AMR][1000 genomes]
rs4718397	0.81[AMR][1000 genomes]
rs4718398	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4718402	0.87[AMR][1000 genomes]
rs4718407	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4718409	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4718426	0.87[AMR][1000 genomes]
rs62464646	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs62464647	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs62464648	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs62464651	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs62464652	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs62464653	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs62464654	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs62464655	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs62464658	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs62464659	0.87[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs62465661	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs62465676	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62465678	0.87[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs62465681	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs62465682	1.00[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs62465688	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62465698	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62465700	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62465701	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62465705	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs62465706	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs62465707	1.00[AMR][1000 genomes]
rs62465709	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs62465710	0.93[AMR][1000 genomes]
rs62465712	1.00[AMR][1000 genomes]
rs62465713	1.00[AMR][1000 genomes]
rs62465714	1.00[AMR][1000 genomes]
rs62465716	1.00[AMR][1000 genomes]
rs62465730	1.00[AMR][1000 genomes]
rs62465734	0.87[AMR][1000 genomes]
rs62465736	0.87[AMR][1000 genomes]
rs62465738	0.87[AMR][1000 genomes]
rs62465739	0.87[AMR][1000 genomes]
rs62465740	0.87[AMR][1000 genomes]
rs62465741	0.87[AMR][1000 genomes]
rs62465742	0.87[AMR][1000 genomes]
rs62465743	0.87[AMR][1000 genomes]
rs62465744	0.87[AMR][1000 genomes]
rs62465745	0.87[AMR][1000 genomes]
rs62465747	0.87[AMR][1000 genomes]
rs62465748	0.87[AMR][1000 genomes]
rs62465750	0.87[AMR][1000 genomes]
rs62465752	0.87[AMR][1000 genomes]
rs62466148	1.00[AFR][1000 genomes]
rs62466575	0.87[AMR][1000 genomes]
rs62466788	1.00[AFR][1000 genomes]
rs62466803	0.81[AMR][1000 genomes]
rs62466805	0.81[AMR][1000 genomes]
rs62466806	0.81[AMR][1000 genomes]
rs62466808	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs62466847	0.81[AMR][1000 genomes]
rs62466848	0.81[AMR][1000 genomes]
rs62466850	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs62466851	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs62466852	0.81[AMR][1000 genomes]
rs62466855	0.87[AMR][1000 genomes]
rs62466856	0.81[AMR][1000 genomes]
rs62466857	0.81[AMR][1000 genomes]
rs62466858	0.81[AMR][1000 genomes]
rs62466859	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs62468260	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs62468261	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs62468262	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs62468263	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs7781008	0.87[AMR][1000 genomes];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1026559	chr7:65617368-66370805	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	116 gene(s)	inside rSNPs	diseases
2	nsv888328	chr7:66173040-66327654	Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	nsv888329	chr7:66234585-66376095	Strong transcription Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
4	esv3432664	chr7:66291892-66307249	Weak transcription Enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	esv3444223	chr7:66303317-66305265	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs62465699	RABGEF1	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:66297600-66309000	Weak transcription	Right Atrium	heart

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