Variant report

Variant	rs11173411
Chromosome Location	chr12:40144287-40144288
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 75 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10219652	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10444570	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10735885	0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10747877	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10747878	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10783994	0.87[EUR][1000 genomes]
rs10784034	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10784051	0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10784059	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10877410	0.81[ASN][1000 genomes]
rs11173259	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11173394	0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs11173401	0.96[ASN][1000 genomes]
rs11173423	0.97[ASN][1000 genomes]
rs11173424	0.96[ASN][1000 genomes]
rs11173428	0.97[ASN][1000 genomes]
rs11173433	0.96[ASN][1000 genomes]
rs11173434	0.97[ASN][1000 genomes]
rs11173440	0.97[ASN][1000 genomes]
rs11173446	0.97[ASN][1000 genomes]
rs11173459	0.97[ASN][1000 genomes]
rs11173494	0.96[ASN][1000 genomes]
rs11173507	0.94[ASN][1000 genomes]
rs11173541	0.92[ASN][1000 genomes]
rs11173550	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11173551	0.91[ASN][1000 genomes]
rs11173553	0.89[ASN][1000 genomes]
rs11532458	0.93[ASN][1000 genomes]
rs12229203	0.93[ASN][1000 genomes]
rs12229418	0.96[ASN][1000 genomes]
rs12230687	0.95[ASN][1000 genomes]
rs12299938	0.89[ASN][1000 genomes]
rs12823801	0.89[EUR][1000 genomes]
rs4238072	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4238073	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4255599	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4255600	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4312128	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4322460	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs4322461	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4381428	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4388963	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4391875	0.85[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4397916	0.93[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4405390	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4405391	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4411336	0.87[EUR][1000 genomes]
rs4417381	0.87[EUR][1000 genomes]
rs4556618	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4767949	0.87[EUR][1000 genomes]
rs4768170	0.81[ASN][1000 genomes]
rs57244766	0.81[ASN][1000 genomes]
rs58418587	0.81[ASN][1000 genomes]
rs58755301	0.80[AMR][1000 genomes]
rs61931185	0.96[ASN][1000 genomes]
rs61931208	0.93[ASN][1000 genomes]
rs61931211	0.83[ASN][1000 genomes]
rs61933154	0.81[ASN][1000 genomes]
rs61933157	0.96[ASN][1000 genomes]
rs61933158	0.93[ASN][1000 genomes]
rs6581294	0.81[ASN][1000 genomes]
rs7298453	0.90[ASN][1000 genomes]
rs7301886	0.97[ASN][1000 genomes]
rs7302849	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7308955	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7952735	0.87[EUR][1000 genomes]
rs7964129	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7969282	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531527	chr12:39680812-40182822	Enhancers Weak transcription Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv1037457	chr12:39898349-40245401	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv541480	chr12:39898349-40245401	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv899024	chr12:40046408-40188870	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
5	nsv1053603	chr12:40082673-40197609	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv427907	chr12:40122713-40199621	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv428280	chr12:40122713-40199621	ZNF genes & repeats Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS	Chromatin interactive region lncRNA	3 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	chr12:40130800-40156400	Weak transcription	Rectal Mucosa Donor 31	rectum
2	chr12:40137200-40145800	Weak transcription	Aorta	Aorta
3	chr12:40137200-40154200	Weak transcription	Liver	Liver
4	chr12:40143800-40156800	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr12:40144200-40156200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr12:40144200-40157600	Weak transcription	Pancreas	Pancrea

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