Variant report

Variant	rs7519509
Chromosome Location	chr1:57108143-57108144
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10749708	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10789036	1.00[ASW][hapmap];0.92[CEU][hapmap];0.84[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];0.89[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10789038	0.92[CHB][hapmap];0.86[JPT][hapmap];0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10789040	0.80[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs10789041	0.80[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs10889006	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10889008	1.00[ASW][hapmap];0.84[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.86[MEX][hapmap];0.84[MKK][hapmap];0.89[TSI][hapmap];0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs10889009	0.85[ASN][1000 genomes]
rs11206884	0.89[AFR][1000 genomes];0.84[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs11206885	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11206886	0.91[ASN][1000 genomes]
rs11206888	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11206889	1.00[ASW][hapmap];0.92[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.82[LWK][hapmap];0.95[MEX][hapmap];0.99[MKK][hapmap];0.98[TSI][hapmap];0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11206890	1.00[ASW][hapmap];0.92[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.84[LWK][hapmap];0.95[MEX][hapmap];0.99[MKK][hapmap];0.98[TSI][hapmap];0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11206895	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1124900	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs11589368	0.85[ASN][1000 genomes]
rs11804779	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs12021768	0.95[ASN][1000 genomes]
rs12021851	0.95[ASN][1000 genomes]
rs12023668	0.85[ASN][1000 genomes]
rs12032999	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs12046428	0.83[ASN][1000 genomes]
rs12048572	0.85[ASN][1000 genomes]
rs12073311	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12078260	1.00[ASW][hapmap];1.00[CEU][hapmap];0.92[CHB][hapmap];0.94[CHD][hapmap];0.86[GIH][hapmap];0.88[JPT][hapmap];1.00[LWK][hapmap];0.80[MEX][hapmap];0.94[MKK][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12092267	0.80[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs12097148	0.80[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs12738355	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13374924	0.80[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs1418442	0.84[CHB][hapmap];0.89[CHD][hapmap];0.95[GIH][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];0.85[ASN][1000 genomes]
rs1986660	0.95[ASN][1000 genomes]
rs2404718	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2404992	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs2404993	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs2746345	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2746348	1.00[ASW][hapmap];0.82[LWK][hapmap];0.95[MEX][hapmap];0.99[MKK][hapmap];0.86[TSI][hapmap];0.80[AFR][1000 genomes]
rs2746349	1.00[ASW][hapmap];0.82[LWK][hapmap];0.86[MEX][hapmap];0.97[MKK][hapmap];0.89[TSI][hapmap]
rs2746353	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2796517	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2796519	0.92[CHB][hapmap];0.94[CHD][hapmap];0.97[GIH][hapmap];0.88[JPT][hapmap];0.95[MEX][hapmap];0.94[MKK][hapmap];0.98[TSI][hapmap];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2796523	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2796527	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4548471	0.95[ASN][1000 genomes]
rs4551620	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4562656	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4584419	1.00[ASW][hapmap];1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59223968	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61772962	0.86[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs61774287	0.95[ASN][1000 genomes]
rs61774288	0.91[AFR][1000 genomes]
rs6588641	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72666470	0.90[ASN][1000 genomes]
rs7419053	0.84[CHB][hapmap];0.89[CHD][hapmap];0.95[GIH][hapmap];0.88[JPT][hapmap];0.86[MEX][hapmap];0.85[ASN][1000 genomes]
rs7515414	0.84[CHB][hapmap];0.89[CHD][hapmap];0.95[GIH][hapmap];0.88[JPT][hapmap];0.86[MEX][hapmap];0.83[ASN][1000 genomes]
rs7545066	0.83[ASN][1000 genomes]
rs7546264	0.85[ASN][1000 genomes]
rs7547486	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs932447	0.84[CHB][hapmap];0.89[CHD][hapmap];0.95[GIH][hapmap];0.88[JPT][hapmap];0.95[MEX][hapmap];0.85[ASN][1000 genomes]
rs9887834	0.80[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs9887940	0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869295	chr1:56894955-57656562	Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:57103200-57109000	Weak transcription	Fetal Heart	heart
2	chr1:57105600-57109000	Weak transcription	HepG2	liver
3	chr1:57105600-57109200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr1:57105600-57109400	Weak transcription	NHDF-Ad	bronchial
5	chr1:57105600-57110000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr1:57105600-57110200	Weak transcription	HSMMtube	muscle
7	chr1:57105800-57108400	Weak transcription	Hela-S3	cervix
8	chr1:57105800-57109800	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr1:57108000-57108200	Bivalent/Poised TSS	Primary B cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links