Variant report

Variant	rs12338689
Chromosome Location	chr9:14978257-14978258
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10115192	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10115344	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10122371	0.80[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs10961818	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12001792	1.00[EUR][1000 genomes]
rs12339145	0.92[EUR][1000 genomes]
rs12339856	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12350915	0.92[EUR][1000 genomes]
rs12353198	0.82[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs13440301	0.92[EUR][1000 genomes]
rs28534798	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28536549	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6474877	1.00[EUR][1000 genomes]
rs7023025	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7023503	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7031667	0.92[EUR][1000 genomes]
rs7031880	1.00[EUR][1000 genomes]
rs7044317	1.00[EUR][1000 genomes]
rs7048212	1.00[EUR][1000 genomes]
rs73642492	1.00[EUR][1000 genomes]
rs7851480	0.92[EUR][1000 genomes]
rs7851938	1.00[EUR][1000 genomes]
rs7860043	1.00[EUR][1000 genomes]
rs9696246	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv613637	chr9:14524438-15011915	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv613647	chr9:14852141-15016475	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv892620	chr9:14922877-15086021	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv892621	chr9:14928013-15043692	Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	esv2761503	chr9:14960217-15049343	Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv892622	chr9:14960217-15055607	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:14957600-14982400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr9:14973800-14991400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr9:14976600-14978600	Weak transcription	HepG2	liver
4	chr9:14977600-14978400	Active TSS	Duodenum Mucosa	Duodenum
5	chr9:14977800-14978400	Active TSS	Pancreatic Islets	Pancreatic Islet
6	chr9:14977800-14978600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr9:14977800-14978600	Active TSS	Fetal Intestine Small	intestine
8	chr9:14977800-14978600	ZNF genes & repeats	Fetal Stomach	stomach
9	chr9:14977800-14978600	Active TSS	Ovary	ovary
10	chr9:14978000-14978800	ZNF genes & repeats	Fetal Intestine Large	intestine
11	chr9:14978200-14978600	Flanking Bivalent TSS/Enh	Fetal Adrenal Gland	Adrenal Gland

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