Variant report

Variant	rs58245968
Chromosome Location	chr5:56974669-56974670
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-GPBP1-3	chr5:56973532-56976618	NONHSAT101585

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10940569	0.87[ASN][1000 genomes]
rs10940570	0.86[ASN][1000 genomes]
rs11738377	0.86[ASN][1000 genomes]
rs11738862	0.88[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs11742166	0.86[ASN][1000 genomes]
rs12153068	0.95[EUR][1000 genomes]
rs12153161	0.86[ASN][1000 genomes]
rs12189365	0.95[EUR][1000 genomes]
rs12652614	0.86[ASN][1000 genomes]
rs12654351	0.95[EUR][1000 genomes]
rs12654963	0.95[EUR][1000 genomes]
rs12655658	0.95[EUR][1000 genomes]
rs12658940	0.95[EUR][1000 genomes]
rs13161204	0.86[ASN][1000 genomes]
rs13177900	0.86[ASN][1000 genomes]
rs1476831	0.86[ASN][1000 genomes]
rs1476832	0.87[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs2191449	0.86[ASN][1000 genomes]
rs2215421	0.86[ASN][1000 genomes]
rs230858	0.87[AFR][1000 genomes]
rs4141128	0.86[ASN][1000 genomes]
rs4699909	0.87[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs4700209	0.95[EUR][1000 genomes]
rs4700210	0.86[ASN][1000 genomes]
rs4700211	0.84[ASN][1000 genomes]
rs59516621	0.95[EUR][1000 genomes]
rs59697426	0.85[EUR][1000 genomes]
rs60219417	0.84[EUR][1000 genomes]
rs61220614	0.95[EUR][1000 genomes]
rs6876911	0.84[EUR][1000 genomes]
rs6883451	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6883485	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73085594	0.95[EUR][1000 genomes]
rs73089817	0.95[EUR][1000 genomes]
rs73089845	0.95[EUR][1000 genomes]
rs73089868	0.95[EUR][1000 genomes]
rs73089872	0.95[EUR][1000 genomes]
rs73089877	0.95[EUR][1000 genomes]
rs7714534	0.86[ASN][1000 genomes]
rs7719947	0.83[ASN][1000 genomes]
rs887503	0.86[ASN][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	nsv830309	chr5:56837590-56978283	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv525330	chr5:56931673-57320343	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:56972400-56978400	Weak transcription	Ovary	ovary
2	chr5:56972400-56988400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr5:56973000-56976200	Weak transcription	HMEC	breast
4	chr5:56973200-56977200	Weak transcription	Hela-S3	cervix
5	chr5:56973200-56977200	Weak transcription	NH-A	brain
6	chr5:56973400-56980000	Weak transcription	Liver	Liver

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