Variant report

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10459099	0.85[AMR][1000 genomes]
rs10505766	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10743986	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10772560	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10772564	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10772565	0.81[ASN][1000 genomes]
rs10772569	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10845531	0.81[AMR][1000 genomes]
rs10845534	0.80[AMR][1000 genomes]
rs10845535	0.80[AMR][1000 genomes]
rs10845538	0.85[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs10845550	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11054900	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs11054902	0.84[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs11054904	0.87[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs11054917	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11054918	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11559836	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12301872	0.81[AMR][1000 genomes]
rs2111270	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs918115	0.83[AMR][1000 genomes];0.87[EUR][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	nsv949003	chr12:11938229-12618690	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats 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 miRNA target site	36 gene(s)	inside rSNPs	diseases
2	esv1812889	chr12:12510842-12593406	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10772562	LOH12CR1	cis	brain	BrainEAC

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:12558000-12586000	Weak transcription	Pancreas	Pancrea
2	chr12:12565200-12585000	Weak transcription	Rectal Mucosa Donor 29	rectum
3	chr12:12572600-12588400	Weak transcription	Primary T cells from cord blood	blood
4	chr12:12573000-12577600	Weak transcription	A549	lung
5	chr12:12576800-12577400	ZNF genes & repeats	Primary T helper naive cells from peripheral blood	blood
6	chr12:12576800-12577600	ZNF genes & repeats	Primary T helper 17 cells PMA-I stimulated	--
7	chr12:12577000-12577400	ZNF genes & repeats	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr12:12577000-12577800	ZNF genes & repeats	Primary T helper naive cells fromperipheralblood	blood
9	chr12:12577000-12578000	Weak transcription	Aorta	Aorta
10	chr12:12577200-12578600	Weak transcription	Rectal Smooth Muscle	rectum

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