Variant report

Variant	rs11778520
Chromosome Location	chrX:19439703-19439704
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 44 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10088152	0.81[ASN][1000 genomes]
rs10104264	0.85[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs10216478	0.81[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs10808364	0.83[ASN][1000 genomes]
rs13277925	0.81[ASN][1000 genomes]
rs2291548	0.86[ASN][1000 genomes]
rs28886569	0.81[ASN][1000 genomes]
rs3103696	0.80[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs3103707	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs3103710	0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs3103711	0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs3103712	0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs3103727	0.81[ASN][1000 genomes]
rs3103730	0.86[ASN][1000 genomes]
rs3103732	0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs3110396	0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs3110399	0.80[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs3110400	0.80[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs3134143	0.80[ASN][1000 genomes]
rs3134144	0.84[ASN][1000 genomes]
rs3134305	0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs3134306	0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs3134308	0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs3134309	0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs4133425	0.81[ASN][1000 genomes]
rs4428646	0.81[ASN][1000 genomes]
rs4446702	0.80[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs4455798	0.81[ASN][1000 genomes]
rs4481561	0.81[ASN][1000 genomes]
rs4493885	0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs6468681	0.86[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs6986710	0.86[ASN][1000 genomes]
rs6990741	0.81[ASN][1000 genomes]
rs7001154	0.85[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs7002106	0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7002148	0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7011936	0.81[ASN][1000 genomes]
rs7016304	0.81[ASN][1000 genomes]
rs7815414	0.81[ASN][1000 genomes]
rs7839332	0.85[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs7840337	0.86[ASN][1000 genomes]
rs9642958	0.81[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	nsv917724	chrX:18588592-19504856	Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Strong transcription Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv868890	chrX:19091490-19762026	Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11778520	ARHGEF12	trans	lymphoblastoid	RTeQTL

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chrX:19379400-19451600	Weak transcription	HepG2	liver
2	chrX:19429000-19448200	Weak transcription	A549	lung
3	chrX:19430600-19441400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links