Variant report

Variant	rs12552893
Chromosome Location	chr9:10172008-10172009
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs12552479	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12552628	1.00[AFR][1000 genomes]
rs12552905	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12553942	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1590348	1.00[CEU][hapmap]
rs17620435	1.00[CEU][hapmap]
rs28444640	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs294847	1.00[CEU][hapmap]
rs294849	0.85[CEU][hapmap]
rs294850	0.87[CEU][hapmap]
rs294851	0.87[CEU][hapmap]
rs4740444	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4741012	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55871151	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56024158	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72696903	0.94[EUR][1000 genomes]
rs72696906	0.94[EUR][1000 genomes]
rs72696907	0.94[EUR][1000 genomes]
rs72696910	0.91[EUR][1000 genomes]
rs72696911	0.94[EUR][1000 genomes]
rs72696916	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72696917	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72696918	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72696945	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72696949	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72696950	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1034731	chr9:9776126-10481262	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv892295	chr9:9832245-10380406	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv1030657	chr9:10002355-10481262	Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv831506	chr9:10040172-10204609	Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv1024401	chr9:10105656-10218577	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv539995	chr9:10105656-10218577	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv892308	chr9:10139580-10178560	Weak transcription Enhancers Flanking Active TSS	n/a	n/a	inside rSNPs	diseases
8	nsv892309	chr9:10158866-10192290	Weak transcription Enhancers	n/a	n/a	inside rSNPs	diseases
9	nsv1033178	chr9:10169848-10428731	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:10165400-10173600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr9:10168000-10173600	Weak transcription	Fetal Brain Male	brain
3	chr9:10172000-10174000	Enhancers	Fetal Heart	heart

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