Variant report

Variant	rs12553816
Chromosome Location	chr9:15797453-15797454
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 90 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:82)

rs_ID	r²[population]
rs10732335	0.82[AMR][1000 genomes]
rs10733301	0.95[AMR][1000 genomes]
rs10733302	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes]
rs10733305	0.81[AMR][1000 genomes]
rs10738411	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes]
rs10738413	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10738417	0.81[AMR][1000 genomes]
rs10756692	0.90[AMR][1000 genomes]
rs10756695	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs10756696	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes]
rs10756697	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes]
rs10756703	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10756704	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10756713	0.80[AMR][1000 genomes]
rs10810435	0.96[AMR][1000 genomes]
rs10810436	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes]
rs10810439	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10810442	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10810448	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10810450	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10810451	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10810452	0.83[AMR][1000 genomes]
rs10810455	0.81[AMR][1000 genomes]
rs10962124	0.85[AMR][1000 genomes]
rs10962142	0.96[AMR][1000 genomes]
rs10962149	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10962151	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10962157	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10962158	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10962161	0.80[AMR][1000 genomes]
rs10962162	0.82[AMR][1000 genomes]
rs10962163	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10962167	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11515218	0.81[ASN][1000 genomes]
rs11521158	0.82[ASN][1000 genomes]
rs11562188	0.82[AMR][1000 genomes]
rs12057012	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12346205	0.86[AMR][1000 genomes]
rs12349973	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12552653	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13295778	0.88[ASN][1000 genomes]
rs13296276	0.86[AMR][1000 genomes]
rs1341735	0.84[ASN][1000 genomes]
rs1396708	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs1509310	0.80[AMR][1000 genomes]
rs1539172	0.81[AMR][1000 genomes]
rs1592099	0.95[AMR][1000 genomes]
rs2105315	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes]
rs2105317	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2105318	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2105319	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2185663	0.81[AMR][1000 genomes]
rs2211323	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2382538	0.81[AFR][1000 genomes]
rs2891002	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2891007	0.80[AMR][1000 genomes]
rs4146290	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4146291	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4740624	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4740625	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4740626	0.81[EUR][1000 genomes]
rs4740627	0.82[AMR][1000 genomes]
rs4741535	0.93[AMR][1000 genomes]
rs4741542	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4741545	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs4961713	0.85[AMR][1000 genomes]
rs6474967	0.86[AMR][1000 genomes]
rs6474974	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7043770	0.80[ASN][1000 genomes]
rs7045018	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7466716	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7466717	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7846970	0.83[ASN][1000 genomes]
rs7859718	0.81[EUR][1000 genomes]
rs7860528	0.83[ASN][1000 genomes]
rs7860755	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7860992	0.83[ASN][1000 genomes]
rs7873776	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs950234	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes]
rs955369	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9650685	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs9886731	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv892625	chr9:15326251-16064850	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv892627	chr9:15397969-15909450	Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
3	nsv892632	chr9:15590116-15869845	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv892633	chr9:15604746-15889411	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv892635	chr9:15731775-15876507	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv528964	chr9:15760822-15875162	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv892636	chr9:15794858-15876507	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv613660	chr9:15794897-15817119	Weak transcription ZNF genes & repeats Strong transcription Enhancers Active TSS	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:15777000-15810600	Weak transcription	Pancreas	Pancrea
2	chr9:15783600-15802000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr9:15785000-15808600	Weak transcription	Aorta	Aorta
4	chr9:15787200-15799600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr9:15790200-15800000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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