Variant report

Variant	rs7650703
Chromosome Location	chr3:160851639-160851640
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:160838900..160841053-chr3:160850785..160853337,2	MCF-7	breast:

Extended variants
information (count: 66 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs1026572	0.85[EUR][1000 genomes]
rs1037888	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10936223	0.84[EUR][1000 genomes]
rs12493960	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12631850	0.85[EUR][1000 genomes]
rs13066683	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1599374	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1599376	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1599378	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1599379	0.87[EUR][1000 genomes]
rs1599381	0.90[EUR][1000 genomes]
rs1599383	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1599386	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1599389	0.90[EUR][1000 genomes]
rs1599390	0.90[EUR][1000 genomes]
rs1609688	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1610158	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2306061	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2593812	0.81[ASN][1000 genomes]
rs4342141	0.81[EUR][1000 genomes]
rs4414866	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4557202	0.90[EUR][1000 genomes]
rs4616689	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs5004752	0.86[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6441354	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6765270	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6769642	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6772578	0.86[AMR][1000 genomes]
rs6774635	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6778254	0.82[EUR][1000 genomes]
rs6783085	0.90[EUR][1000 genomes]
rs6789244	0.90[EUR][1000 genomes]
rs6799130	0.90[EUR][1000 genomes]
rs7614375	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7617204	0.90[EUR][1000 genomes]
rs7619011	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7622047	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7625363	0.89[EUR][1000 genomes]
rs7628880	0.80[AMR][1000 genomes]
rs7630674	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7630768	0.90[EUR][1000 genomes]
rs7633857	0.90[EUR][1000 genomes]
rs7637086	0.90[EUR][1000 genomes]
rs7647285	0.90[EUR][1000 genomes]
rs7651087	0.90[EUR][1000 genomes]
rs778642	0.81[ASN][1000 genomes]
rs778643	0.81[ASN][1000 genomes]
rs778646	0.81[ASN][1000 genomes]
rs778649	0.81[ASN][1000 genomes]
rs778654	0.81[ASN][1000 genomes]
rs778663	0.81[AMR][1000 genomes]
rs796609	0.81[ASN][1000 genomes]
rs898680	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs898681	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9290065	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9290069	0.82[EUR][1000 genomes]
rs980975	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs980976	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9820825	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9831488	0.87[ASN][1000 genomes]
rs9847866	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9848239	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9860360	0.86[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs9867582	0.87[EUR][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	nsv931072	chr3:160669567-161159779	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers 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 miRNA target site	98 gene(s)	inside rSNPs	diseases
2	nsv963285	chr3:160848780-160856433	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7650703	B3GALNT1	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160844600-160859000	Weak transcription	Left Ventricle	heart
2	chr3:160850400-160882400	Weak transcription	Ovary	ovary

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links