Variant report

Variant	rs11197093
Chromosome Location	chr10:116923936-116923937
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 89 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:86)

rs_ID	r²[population]
rs1010610	0.89[EUR][1000 genomes]
rs10444034	0.88[CEU][hapmap]
rs10736240	0.97[GIH][hapmap];0.92[TSI][hapmap]
rs10787554	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10787555	0.92[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.89[TSI][hapmap];0.85[ASN][1000 genomes]
rs10787557	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs10885655	0.80[EUR][1000 genomes]
rs10885658	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10885659	0.92[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10885660	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10885661	0.87[EUR][1000 genomes]
rs10885662	0.92[CEU][hapmap];0.82[JPT][hapmap];0.87[EUR][1000 genomes]
rs10885664	0.92[CEU][hapmap];0.82[JPT][hapmap];0.89[TSI][hapmap];0.87[EUR][1000 genomes]
rs10885669	0.92[CEU][hapmap];0.82[JPT][hapmap];0.84[EUR][1000 genomes]
rs10885671	0.92[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.89[TSI][hapmap];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10885672	0.92[CEU][hapmap];0.81[JPT][hapmap];0.83[EUR][1000 genomes]
rs10885673	0.92[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10885675	0.92[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[TSI][hapmap];0.82[ASN][1000 genomes]
rs10885676	0.92[CEU][hapmap];0.82[EUR][1000 genomes]
rs10885680	0.84[CEU][hapmap];0.82[JPT][hapmap]
rs10885681	0.92[CEU][hapmap];0.82[JPT][hapmap];0.84[TSI][hapmap]
rs10885683	0.92[CEU][hapmap];0.82[JPT][hapmap];0.84[TSI][hapmap]
rs10885692	0.84[CEU][hapmap];0.82[JPT][hapmap]
rs10885696	0.96[CEU][hapmap]
rs11197066	0.83[EUR][1000 genomes]
rs11197071	0.83[EUR][1000 genomes]
rs11197072	0.88[CEU][hapmap];0.82[JPT][hapmap];0.86[TSI][hapmap]
rs11197081	0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11197084	0.92[CEU][hapmap];0.82[JPT][hapmap];0.83[EUR][1000 genomes]
rs11197087	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11197091	0.92[CEU][hapmap];0.82[JPT][hapmap];0.87[EUR][1000 genomes]
rs11197094	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11197103	0.84[EUR][1000 genomes]
rs11197107	0.92[CEU][hapmap];0.82[JPT][hapmap];0.83[EUR][1000 genomes]
rs11197110	0.92[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.89[TSI][hapmap];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11197115	0.87[CEU][hapmap];0.82[JPT][hapmap]
rs11197122	0.92[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11197127	0.92[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap]
rs11197150	0.82[CEU][hapmap];0.81[JPT][hapmap]
rs11197162	0.95[CEU][hapmap]
rs11197163	0.88[CEU][hapmap];0.82[JPT][hapmap]
rs11197165	0.92[CEU][hapmap]
rs11197167	0.92[CEU][hapmap];0.82[JPT][hapmap]
rs11197168	0.82[JPT][hapmap];0.81[TSI][hapmap]
rs12218100	0.92[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs12218477	0.82[EUR][1000 genomes]
rs12357053	0.84[CEU][hapmap];0.82[JPT][hapmap];0.81[TSI][hapmap]
rs12358411	0.81[JPT][hapmap]
rs12360503	0.83[EUR][1000 genomes]
rs12573443	0.92[CEU][hapmap];0.81[TSI][hapmap]
rs1264748	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1264756	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1264763	1.00[CEU][hapmap];0.97[GIH][hapmap];0.82[JPT][hapmap];0.97[TSI][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1264765	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1264768	1.00[CEU][hapmap];0.80[JPT][hapmap];0.95[EUR][1000 genomes]
rs1264774	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap]
rs1264782	0.96[CEU][hapmap];0.93[GIH][hapmap];0.82[JPT][hapmap];0.97[TSI][hapmap];0.89[EUR][1000 genomes]
rs1264783	0.96[CEU][hapmap];0.82[JPT][hapmap];0.93[EUR][1000 genomes]
rs1264794	0.92[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[TSI][hapmap];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1264795	0.96[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1264796	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1264799	0.89[EUR][1000 genomes]
rs1268459	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1268460	1.00[CEU][hapmap];0.82[JPT][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1268916	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1269602	0.92[ASN][1000 genomes]
rs1270442	0.89[CEU][hapmap];0.88[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1270654	0.89[EUR][1000 genomes]
rs1389647	0.92[CEU][hapmap];0.98[GIH][hapmap];0.82[JPT][hapmap];0.92[TSI][hapmap]
rs1537685	0.92[CEU][hapmap];0.82[JPT][hapmap];0.89[TSI][hapmap];0.87[EUR][1000 genomes]
rs1663157	1.00[CEU][hapmap];0.93[GIH][hapmap];0.82[JPT][hapmap];1.00[TSI][hapmap];0.94[EUR][1000 genomes]
rs17092908	0.92[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs17722681	0.92[CEU][hapmap];0.82[JPT][hapmap];0.81[EUR][1000 genomes]
rs1899718	0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1899721	0.92[CEU][hapmap];0.82[JPT][hapmap];0.81[EUR][1000 genomes]
rs2050706	0.88[CEU][hapmap]
rs2172669	0.86[CEU][hapmap]
rs2256046	0.92[CEU][hapmap];0.82[JPT][hapmap];0.82[EUR][1000 genomes]
rs2265930	1.00[CEU][hapmap];1.00[GIH][hapmap];0.82[JPT][hapmap];0.97[TSI][hapmap];0.92[EUR][1000 genomes]
rs2420078	0.87[CEU][hapmap]
rs2440313	0.82[ASN][1000 genomes]
rs2492980	1.00[CEU][hapmap];0.82[JPT][hapmap];0.81[EUR][1000 genomes]
rs2492981	0.86[EUR][1000 genomes]
rs35120367	0.86[EUR][1000 genomes]
rs4752724	0.92[CEU][hapmap];0.82[JPT][hapmap];0.84[EUR][1000 genomes]
rs923907	0.84[CEU][hapmap];0.82[JPT][hapmap];0.81[TSI][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3435429	chr10:116394152-117006347	Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv831998	chr10:116847998-116969618	Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Weak transcription Strong transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv869279	chr10:116884639-117032437	Enhancers ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Strong transcription	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11197093	ATRNL1	cis	Esophagus Muscularis	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:116912000-116925600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr10:116919800-116925800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr10:116923600-116924600	Enhancers	Primary monocytes fromperipheralblood	blood
4	chr10:116923600-116925800	Weak transcription	Fetal Brain Female	brain
5	chr10:116923800-116924800	Enhancers	Monocytes-CD14+_RO01746	blood
6	chr10:116923800-116935600	Weak transcription	Fetal Brain Male	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links