Variant report

Variant	rs12349074
Chromosome Location	chr9:92930372-92930373
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10992245	1.00[AFR][1000 genomes]
rs10992247	1.00[AFR][1000 genomes]
rs10992305	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10992307	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10992310	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12003087	1.00[AFR][1000 genomes]
rs12340457	1.00[AFR][1000 genomes]
rs12340868	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12342443	1.00[AFR][1000 genomes]
rs12345029	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12347673	0.82[EUR][1000 genomes]
rs12347676	0.82[EUR][1000 genomes]
rs12350417	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs437997	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55988602	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs62560130	1.00[AFR][1000 genomes]
rs62560131	1.00[AFR][1000 genomes]
rs72741339	1.00[AFR][1000 genomes]
rs72755094	1.00[AFR][1000 genomes]
rs72755095	1.00[AFR][1000 genomes]
rs72756923	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs72756927	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs72756928	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs72756941	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv614852	chr9:92786722-93100550	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv893563	chr9:92816727-92967125	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv1051180	chr9:92869383-93141038	Weak transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv540169	chr9:92869383-93141038	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv482531	chr9:92907692-93096360	ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:92925200-92933200	Weak transcription	Esophagus	oesophagus
2	chr9:92927600-92930600	Enhancers	Pancreas	Pancrea
3	chr9:92927600-92931400	Enhancers	Rectal Mucosa Donor 31	rectum
4	chr9:92927800-92931200	Enhancers	Rectal Mucosa Donor 29	rectum
5	chr9:92928000-92931400	Enhancers	Duodenum Mucosa	Duodenum
6	chr9:92929200-92935200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr9:92930000-92930400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr9:92930000-92930400	Enhancers	Small Intestine	intestine
9	chr9:92930000-92930600	Enhancers	Fetal Lung	lung
10	chr9:92930000-92931200	Enhancers	Colonic Mucosa	Colon
11	chr9:92930000-92931800	Enhancers	Fetal Intestine Large	intestine
12	chr9:92930000-92932200	Enhancers	Stomach Mucosa	stomach
13	chr9:92930200-92930400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr9:92930200-92930800	Enhancers	HepG2	liver
15	chr9:92930200-92931000	Enhancers	Duodenum Smooth Muscle	Duodenum

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