Variant report

Variant	rs59661152
Chromosome Location	chr10:90586417-90586418
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 85 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs1029024	0.96[ASN][1000 genomes]
rs1029025	0.96[ASN][1000 genomes]
rs10509555	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10509556	1.00[EUR][1000 genomes]
rs10509558	1.00[EUR][1000 genomes]
rs10509559	1.00[EUR][1000 genomes]
rs11202885	1.00[EUR][1000 genomes]
rs12242274	1.00[EUR][1000 genomes]
rs12243282	1.00[EUR][1000 genomes]
rs12243621	1.00[EUR][1000 genomes]
rs12245525	1.00[EUR][1000 genomes]
rs12245668	1.00[EUR][1000 genomes]
rs12254451	1.00[EUR][1000 genomes]
rs12257540	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12260572	1.00[EUR][1000 genomes]
rs12263461	1.00[EUR][1000 genomes]
rs12412357	0.85[AMR][1000 genomes]
rs12412604	0.81[AMR][1000 genomes]
rs12412903	0.81[AMR][1000 genomes]
rs12413277	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12414211	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12414648	1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs12414800	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1339780	0.85[AMR][1000 genomes]
rs1339781	0.85[AMR][1000 genomes]
rs17112748	0.85[AMR][1000 genomes]
rs17112781	0.85[AMR][1000 genomes]
rs17112872	0.85[AMR][1000 genomes]
rs17112956	0.85[AMR][1000 genomes]
rs17112974	0.85[AMR][1000 genomes]
rs17113067	0.85[AMR][1000 genomes]
rs17113082	0.85[AMR][1000 genomes]
rs17113129	0.85[AMR][1000 genomes]
rs17113165	0.85[AMR][1000 genomes]
rs17113311	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17113344	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17113363	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17113426	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17113457	1.00[EUR][1000 genomes]
rs17113476	1.00[EUR][1000 genomes]
rs17113724	1.00[EUR][1000 genomes]
rs17113942	1.00[EUR][1000 genomes]
rs17113959	1.00[EUR][1000 genomes]
rs17114000	1.00[EUR][1000 genomes]
rs17114016	1.00[EUR][1000 genomes]
rs17114020	1.00[EUR][1000 genomes]
rs17114024	1.00[EUR][1000 genomes]
rs17114057	1.00[EUR][1000 genomes]
rs2231780	1.00[EUR][1000 genomes]
rs2231785	1.00[EUR][1000 genomes]
rs2231786	1.00[EUR][1000 genomes]
rs2282122	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35996190	1.00[EUR][1000 genomes]
rs3814691	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3898173	1.00[EUR][1000 genomes]
rs3898174	1.00[EUR][1000 genomes]
rs4933485	0.85[AMR][1000 genomes]
rs4934421	0.85[AMR][1000 genomes]
rs4934422	0.85[AMR][1000 genomes]
rs56848106	1.00[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs56998609	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs57259051	0.92[AMR][1000 genomes]
rs57934910	0.85[AMR][1000 genomes]
rs58036732	0.85[AMR][1000 genomes]
rs58673564	1.00[EUR][1000 genomes]
rs58986570	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs59254861	0.85[AMR][1000 genomes]
rs60040082	1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs60349051	1.00[EUR][1000 genomes]
rs60523093	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7077019	1.00[EUR][1000 genomes]
rs7090604	1.00[EUR][1000 genomes]
rs7098246	1.00[EUR][1000 genomes]
rs73364839	1.00[EUR][1000 genomes]
rs73364841	1.00[EUR][1000 genomes]
rs73364851	1.00[EUR][1000 genomes]
rs7913997	1.00[EUR][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	nsv529324	chr10:90198865-90738588	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv831941	chr10:90410488-90587332	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv1042848	chr10:90466032-91318474	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
4	nsv540741	chr10:90466032-91318474	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
5	nsv1043015	chr10:90467067-90593692	Enhancers Weak transcription Bivalent Enhancer Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases
6	nsv467415	chr10:90478483-90600865	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases
7	nsv551840	chr10:90478483-90600865	Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases
8	nsv831942	chr10:90564697-90730352	Flanking Active TSS Genic enhancers Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90574200-90598400	Weak transcription	Gastric	stomach
2	chr10:90578000-90607200	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr10:90578400-90591600	Weak transcription	Fetal Stomach	stomach
4	chr10:90578600-90592600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr10:90578600-90611200	Weak transcription	Esophagus	oesophagus
6	chr10:90579200-90591600	Strong transcription	Primary neutrophils fromperipheralblood	blood
7	chr10:90580200-90587600	Weak transcription	Small Intestine	intestine
8	chr10:90582200-90586800	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr10:90582600-90591600	Strong transcription	Monocytes-CD14+_RO01746	blood
10	chr10:90583600-90587800	Weak transcription	Primary monocytes fromperipheralblood	blood
11	chr10:90583600-90592800	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr10:90583800-90587000	Enhancers	Primary T helper cells fromperipheralblood	blood
13	chr10:90583800-90587000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
14	chr10:90584000-90587000	Enhancers	Primary T cells fromperipheralblood	blood
15	chr10:90584200-90587000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
16	chr10:90584200-90587000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
17	chr10:90584200-90587000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
18	chr10:90585400-90587000	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
19	chr10:90585400-90587600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
20	chr10:90585400-90588000	Enhancers	Primary T helper naive cells from peripheral blood	blood
21	chr10:90585400-90588400	Weak transcription	Primary hematopoietic stem cells	blood
22	chr10:90585400-90588400	Enhancers	Primary T helper cells PMA-I stimulated	--
23	chr10:90585600-90587400	Enhancers	Primary T killer memory cells from peripheral blood	blood
24	chr10:90585600-90588000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
25	chr10:90585600-90590400	Weak transcription	GM12878-XiMat	blood
26	chr10:90585800-90586600	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
27	chr10:90585800-90587000	Genic enhancers	Fetal Thymus	thymus
28	chr10:90586400-90586800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr10:90586400-90587800	Enhancers	Primary T cells from cord blood	blood
30	chr10:90586400-90589400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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