Variant report

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10004035	1.00[CHD][hapmap]
rs11726315	0.92[TSI][hapmap]
rs11936682	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17052152	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1922385	0.84[EUR][1000 genomes]
rs2244288	0.80[EUR][1000 genomes]
rs2555624	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2555634	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4306935	0.89[TSI][hapmap]
rs4624634	0.80[CEU][hapmap];1.00[CHD][hapmap];0.82[MEX][hapmap];0.94[TSI][hapmap]
rs6821522	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6828850	0.86[ASN][1000 genomes]
rs72704105	0.80[EUR][1000 genomes]
rs72704109	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs72704112	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72704116	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72704127	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7660879	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7673685	0.81[CEU][hapmap];1.00[CHD][hapmap]
rs9998793	1.00[CHD][hapmap]

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	nsv869116	chr4:175231090-175801761	Flanking Active TSS Enhancers Genic enhancers Weak transcription Bivalent/Poised TSS Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
2	esv3361753	chr4:175375852-175377950	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	n/a

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10520282	HPGD	cis	multi-tissue	Pritchard
rs10520282	KIAA1712	cis	parietal	SCAN

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:175371000-175378400	Weak transcription	Esophagus	oesophagus
2	chr4:175371800-175382600	Weak transcription	Small Intestine	intestine
3	chr4:175374000-175377800	Weak transcription	Duodenum Smooth Muscle	Duodenum
4	chr4:175374200-175378800	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr4:175374400-175377800	Weak transcription	Stomach Mucosa	stomach
6	chr4:175374600-175382800	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr4:175376000-175379400	Enhancers	Colon Smooth Muscle	Colon
8	chr4:175376200-175378800	Weak transcription	Pancreas	Pancrea
9	chr4:175376400-175381600	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr4:175376600-175381600	Weak transcription	Fetal Intestine Small	intestine
11	chr4:175377000-175378400	Enhancers	Fetal Stomach	stomach
12	chr4:175377000-175379600	Enhancers	Rectal Smooth Muscle	rectum
13	chr4:175377200-175377800	Enhancers	Stomach Smooth Muscle	stomach

Quick Search: