Variant report

Variant	rs12682851
Chromosome Location	chr9:8012418-8012419
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 25 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs10976717	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10976721	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12682852	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12685956	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13287041	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:20 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv995116	chr9:7682729-8065192	Strong transcription Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv8414	chr9:7827373-8511613	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv1024456	chr9:7887727-8157591	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv539979	chr9:7887727-8157591	Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv1032967	chr9:7985651-8088281	Enhancers Active TSS ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv519428	chr9:7997936-8039781	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv892219	chr9:7997936-8087483	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv613271	chr9:7999346-8016079	Enhancers Weak transcription	n/a	n/a	inside rSNPs	diseases
9	nsv613272	chr9:7999681-8016585	Weak transcription Enhancers	n/a	n/a	inside rSNPs	diseases
10	esv2764144	chr9:8009205-8021065	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
11	nsv818682	chr9:8009428-8014674	Enhancers Weak transcription	n/a	n/a	inside rSNPs	diseases
12	nsv613274	chr9:8009428-8015368	Enhancers Weak transcription	n/a	n/a	inside rSNPs	diseases
13	nsv613275	chr9:8009428-8016079	Enhancers Weak transcription	n/a	n/a	inside rSNPs	diseases
14	nsv613276	chr9:8009428-8016502	Enhancers Weak transcription	n/a	n/a	inside rSNPs	diseases
15	nsv613277	chr9:8009428-8016585	Enhancers Weak transcription	n/a	n/a	inside rSNPs	diseases
16	nsv613278	chr9:8009428-8017065	Enhancers Weak transcription	n/a	n/a	inside rSNPs	diseases
17	nsv613279	chr9:8009428-8097977	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
18	nsv613280	chr9:8009807-8016585	Enhancers Weak transcription	n/a	n/a	inside rSNPs	diseases
19	nsv613281	chr9:8009807-8017065	Weak transcription Enhancers	n/a	n/a	inside rSNPs	diseases
20	nsv613282	chr9:8010334-8016955	Weak transcription Enhancers	n/a	n/a	inside rSNPs	diseases

Variant related diseases (count:1)

Disease	PMID	Source
Prostate cancer (gene x gene interaction)	22219177	GWAS catalog

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12682851	POMZP3	trans	lymphoblastoid	seeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:8012000-8012600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr9:8012400-8012600	Enhancers	Placenta Amnion	Placenta Amnion
3	chr9:8012400-8021400	Weak transcription	Pancreatic Islets	Pancreatic Islet

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