Variant report

Variant	rs34642483
Chromosome Location	chr3:116077197-116077198
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10212415	0.85[ASN][1000 genomes]
rs10212559	0.85[ASN][1000 genomes]
rs1030577	1.00[ASN][1000 genomes]
rs11924642	0.99[ASN][1000 genomes]
rs11928524	0.99[ASN][1000 genomes]
rs12695326	0.99[ASN][1000 genomes]
rs13068349	0.96[ASN][1000 genomes]
rs13069948	0.85[ASN][1000 genomes]
rs13070962	0.85[ASN][1000 genomes]
rs13073414	1.00[ASN][1000 genomes]
rs13077694	0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13088599	0.96[AFR][1000 genomes];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13323946	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1367770	0.99[ASN][1000 genomes]
rs1583183	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1731596	0.84[ASN][1000 genomes]
rs17647091	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1920183	0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35061171	0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4271908	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4831096	0.85[ASN][1000 genomes]
rs4831133	0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4831134	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4831136	0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4831138	0.85[ASN][1000 genomes]
rs6438315	0.99[ASN][1000 genomes]
rs6775240	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6786130	0.96[ASN][1000 genomes]
rs71323440	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71625206	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7619907	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7629472	0.86[ASN][1000 genomes]
rs7630011	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7634137	0.99[ASN][1000 genomes]
rs7637573	0.85[ASN][1000 genomes]
rs7652554	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7652923	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9289050	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9289051	0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9823016	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9827984	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9833356	0.96[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9838534	0.86[ASN][1000 genomes]
rs9860105	0.85[ASN][1000 genomes]
rs9860236	0.87[ASN][1000 genomes]
rs9860260	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9861474	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9989972	0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9990359	0.93[EUR][1000 genomes];0.85[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	nsv877361	chr3:116017931-116138039	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv437338	chr3:116076289-116110635	Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs34642483	RNF152	trans	lymphoblastoid	RTeQTL

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:116076400-116077200	Enhancers	HUES64 Cell Line	embryonic stem cell
2	chr3:116076600-116077400	Enhancers	iPS-18 Cell Line	embryonic stem cell
3	chr3:116076800-116077200	Enhancers	ES-I3 Cell Line	embryonic stem cell
4	chr3:116076800-116077200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr3:116076800-116077200	Enhancers	HUES6 Cell Line	embryonic stem cell
6	chr3:116076800-116077200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr3:116076800-116077400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr3:116076800-116077400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
9	chr3:116076800-116077600	Enhancers	HUES48 Cell Line	embryonic stem cell
10	chr3:116076800-116077600	Enhancers	iPS-15b Cell Line	embryonic stem cell

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