Variant report

Variant	rs12907445
Chromosome Location	chr15:56671989-56671990
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 119 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:112)

rs_ID	r²[population]
rs10152826	0.87[EUR][1000 genomes]
rs10438327	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1072358	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11852414	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11853962	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11854726	0.81[EUR][1000 genomes]
rs11855937	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11856170	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11856691	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11857306	0.86[EUR][1000 genomes]
rs11857374	0.91[EUR][1000 genomes]
rs11858489	0.84[EUR][1000 genomes]
rs12324006	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12708449	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12898789	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12901182	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12902594	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12908839	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12910210	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12910212	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1402171	0.88[EUR][1000 genomes]
rs1426069	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1426070	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1477588	0.89[EUR][1000 genomes]
rs1520532	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17238691	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17819444	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1829543	0.81[EUR][1000 genomes]
rs1863425	0.89[EUR][1000 genomes]
rs1991266	0.89[EUR][1000 genomes]
rs2098897	0.89[EUR][1000 genomes]
rs2114185	0.89[EUR][1000 genomes]
rs2460649	0.81[EUR][1000 genomes]
rs2465405	0.80[EUR][1000 genomes]
rs2465968	0.89[EUR][1000 genomes]
rs2465969	0.84[EUR][1000 genomes]
rs2554284	0.88[EUR][1000 genomes]
rs2554287	0.89[EUR][1000 genomes]
rs2554288	0.89[EUR][1000 genomes]
rs2682013	0.89[EUR][1000 genomes]
rs2682015	0.84[EUR][1000 genomes]
rs2682016	0.87[EUR][1000 genomes]
rs2682024	0.89[EUR][1000 genomes]
rs2682025	0.89[EUR][1000 genomes]
rs2682026	0.89[EUR][1000 genomes]
rs2682027	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2682030	0.81[EUR][1000 genomes]
rs2682031	0.81[EUR][1000 genomes]
rs2682032	0.81[EUR][1000 genomes]
rs2682055	0.85[EUR][1000 genomes]
rs2713919	0.89[EUR][1000 genomes]
rs2713921	0.89[EUR][1000 genomes]
rs2713922	0.83[EUR][1000 genomes]
rs2713937	0.81[EUR][1000 genomes]
rs2713939	0.81[EUR][1000 genomes]
rs2713940	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2718904	0.89[EUR][1000 genomes]
rs2718905	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2718921	0.88[EUR][1000 genomes]
rs2718922	0.88[EUR][1000 genomes]
rs2718923	0.89[EUR][1000 genomes]
rs2718924	0.83[EUR][1000 genomes]
rs2718947	0.89[EUR][1000 genomes]
rs2725850	0.88[EUR][1000 genomes]
rs2725851	0.88[EUR][1000 genomes]
rs2725852	0.88[EUR][1000 genomes]
rs2725853	0.88[EUR][1000 genomes]
rs2725855	0.88[EUR][1000 genomes]
rs2725856	0.88[EUR][1000 genomes]
rs2725857	0.89[EUR][1000 genomes]
rs2725861	0.89[EUR][1000 genomes]
rs28621861	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs28622888	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs28866008	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2947023	0.81[EUR][1000 genomes]
rs34544252	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34597546	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34684027	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35131119	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35155290	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35187662	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs35361016	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35470681	0.80[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35570374	0.82[EUR][1000 genomes]
rs35895864	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35968448	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs36082281	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3784551	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4774238	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4774239	0.83[EUR][1000 genomes]
rs4774852	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4774854	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4774855	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4774857	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4774860	0.83[EUR][1000 genomes]
rs56319062	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs57947969	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs60648061	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs61010710	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs61288444	0.80[EUR][1000 genomes]
rs62022130	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62023869	0.84[EUR][1000 genomes]
rs62047375	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62047376	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62047377	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6493844	0.91[EUR][1000 genomes]
rs67347418	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs67639563	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs724100	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs767142	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8032826	0.91[EUR][1000 genomes]
rs8041422	0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1545	chr15:56659498-56897381	Active TSS Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1046891	chr15:56659587-56792033	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv471330	chr15:56659709-56896385	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv471506	chr15:56659709-56896385	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv904246	chr15:56665827-56732192	ZNF genes & repeats Weak transcription Strong transcription Enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv498847	chr15:56667038-56896395	Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	esv2525559	chr15:56669294-56897412	Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 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	chr15:56658200-56675400	Weak transcription	Pancreas	Pancrea
2	chr15:56659600-56675400	Weak transcription	Rectal Mucosa Donor 29	rectum
3	chr15:56660400-56674400	Weak transcription	Hela-S3	cervix
4	chr15:56664400-56685200	Weak transcription	Duodenum Mucosa	Duodenum
5	chr15:56665200-56733400	Weak transcription	Fetal Kidney	kidney
6	chr15:56670400-56672000	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr15:56670600-56673000	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr15:56671000-56672000	ZNF genes & repeats	GM12878-XiMat	blood
9	chr15:56671000-56676800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr15:56671400-56676200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
11	chr15:56671800-56672000	ZNF genes & repeats	Ovary	ovary

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