Variant report

Variant	rs2096086
Chromosome Location	chr1:56744527-56744528
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10158913	0.81[AMR][1000 genomes]
rs10749704	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10789017	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10888964	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10888965	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11206753	0.83[AMR][1000 genomes]
rs11206772	0.80[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs1581994	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2105301	0.92[AFR][1000 genomes]
rs2777758	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2792774	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2792775	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2792776	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2792783	0.88[EUR][1000 genomes]
rs2792794	0.81[CEU][hapmap]
rs2793661	0.81[CEU][hapmap]
rs2793663	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2793665	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2793666	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2793672	0.89[EUR][1000 genomes]
rs2793675	0.85[EUR][1000 genomes]
rs2793681	0.84[EUR][1000 genomes]
rs2793683	0.84[EUR][1000 genomes]
rs2793684	0.83[EUR][1000 genomes]
rs2793690	0.82[EUR][1000 genomes]
rs2793691	0.91[EUR][1000 genomes]
rs4550099	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61773389	0.90[EUR][1000 genomes]
rs6663502	0.89[EUR][1000 genomes]
rs6688582	0.89[EUR][1000 genomes]
rs6703556	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs706362	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs706371	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs706384	0.81[AMR][1000 genomes]
rs706388	0.81[AMR][1000 genomes]
rs7417415	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7552430	0.89[EUR][1000 genomes]
rs7553732	0.89[EUR][1000 genomes]
rs778395	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs778429	0.81[AMR][1000 genomes]
rs778432	0.81[AMR][1000 genomes]
rs809018	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9436537	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs947252	0.82[EUR][1000 genomes]
rs9787032	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9787033	0.90[AFR][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	nsv1006422	chr1:56734772-56828606	Flanking Active TSS Weak transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
2	nsv534972	chr1:56734772-56828606	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2096086	ACOT11	cis	cerebellum	SCAN
rs2096086	TTC4	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:56743600-56745200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr1:56744400-56744600	Enhancers	Fetal Stomach	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links