Variant report

Variant	rs9757179
Chromosome Location	chr3:136531587-136531588
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	chr3:136471469..136473912-chr3:136531466..136533756,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000261758	Chromatin interaction

Extended variants
information (count: 75 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:72)

rs_ID	r²[population]
rs10470440	0.83[ASN][1000 genomes]
rs1052618	0.81[ASN][1000 genomes]
rs10935193	0.85[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs10935198	0.83[ASN][1000 genomes]
rs10935199	0.82[EUR][1000 genomes]
rs11924477	0.83[ASN][1000 genomes]
rs12486911	0.84[EUR][1000 genomes]
rs12497379	0.84[ASN][1000 genomes]
rs12695653	0.83[ASN][1000 genomes]
rs1406540	0.83[ASN][1000 genomes]
rs1406541	0.83[ASN][1000 genomes]
rs1569228	0.83[ASN][1000 genomes]
rs1569229	0.83[ASN][1000 genomes]
rs17366234	0.83[EUR][1000 genomes]
rs1805300	0.81[ASN][1000 genomes]
rs1914048	0.83[ASN][1000 genomes]
rs2031030	0.81[ASN][1000 genomes]
rs2031031	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2060303	0.81[ASN][1000 genomes]
rs2271684	0.83[ASN][1000 genomes]
rs28458819	0.93[AFR][1000 genomes];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs28877307	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4038076	0.81[ASN][1000 genomes]
rs4420814	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4533585	0.83[ASN][1000 genomes]
rs4678441	0.93[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4678442	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4678443	0.83[ASN][1000 genomes]
rs4678444	0.83[ASN][1000 genomes]
rs4678445	0.81[ASN][1000 genomes]
rs4678448	0.81[ASN][1000 genomes]
rs56163507	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs56695781	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs60574021	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6439663	0.83[ASN][1000 genomes]
rs6439664	0.83[ASN][1000 genomes]
rs6439667	0.83[ASN][1000 genomes]
rs6439671	0.81[ASN][1000 genomes]
rs6439672	0.81[ASN][1000 genomes]
rs6766755	0.82[ASN][1000 genomes]
rs6773117	0.83[ASN][1000 genomes]
rs6777816	0.81[ASN][1000 genomes]
rs67782618	0.84[EUR][1000 genomes]
rs6793936	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6802291	0.93[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7614422	0.83[ASN][1000 genomes]
rs7621932	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7627443	0.81[ASN][1000 genomes]
rs7630571	0.83[ASN][1000 genomes]
rs7633629	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9289520	0.81[ASN][1000 genomes]
rs938525	0.81[ASN][1000 genomes]
rs9682106	0.82[ASN][1000 genomes]
rs9817453	0.81[ASN][1000 genomes]
rs9818397	0.83[ASN][1000 genomes]
rs9819572	0.83[ASN][1000 genomes]
rs9819743	0.83[ASN][1000 genomes]
rs9821557	0.83[ASN][1000 genomes]
rs9823565	0.83[ASN][1000 genomes]
rs9827648	0.81[ASN][1000 genomes]
rs9832045	0.83[ASN][1000 genomes]
rs9834250	0.83[ASN][1000 genomes]
rs9834438	0.81[ASN][1000 genomes]
rs9835096	0.83[ASN][1000 genomes]
rs9836807	0.81[ASN][1000 genomes]
rs9842577	0.83[ASN][1000 genomes]
rs9843352	0.83[ASN][1000 genomes]
rs9847548	0.83[ASN][1000 genomes]
rs9849767	0.83[ASN][1000 genomes]
rs9860774	0.83[ASN][1000 genomes]
rs9864926	0.83[ASN][1000 genomes]
rs9865545	0.81[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	nsv877530	chr3:136514310-136604697	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	n/a
2	nsv877531	chr3:136517016-136662954	Active TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
3	nsv877532	chr3:136526939-136662603	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9757179	PCCB	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:136531000-136535400	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr3:136531000-136535800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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