Variant report

Variant	rs10961599
Chromosome Location	chr9:14585866-14585867
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10756585	0.90[CHB][hapmap];0.83[MEX][hapmap];1.00[TSI][hapmap];0.86[EUR][1000 genomes]
rs10756586	0.86[CHB][hapmap]
rs10810181	0.99[ASN][1000 genomes]
rs10810186	0.95[CHB][hapmap];0.80[GIH][hapmap];0.83[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10810188	0.95[CHB][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10810189	0.91[CHB][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10810190	0.91[CHB][hapmap];0.81[GIH][hapmap];0.89[MEX][hapmap];1.00[TSI][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10810191	0.84[ASW][hapmap];0.95[CHB][hapmap];1.00[TSI][hapmap];0.86[EUR][1000 genomes]
rs10810196	0.85[CHB][hapmap];0.84[EUR][1000 genomes]
rs10961593	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10961596	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10961597	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10961605	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10961610	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10961616	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10961619	0.95[CHB][hapmap];0.83[JPT][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10961621	0.94[CHB][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10961635	0.84[ASW][hapmap]
rs10961640	0.80[CHB][hapmap]
rs12237470	0.95[CHB][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12683789	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3802481	0.91[CHB][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4278237	0.88[CHB][hapmap]
rs4298581	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4495526	0.93[ASN][1000 genomes]
rs59010612	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7045207	0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7048089	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73405730	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7853156	0.84[ASW][hapmap]

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	nsv1029491	chr9:14033607-14942373	Enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
2	nsv915804	chr9:14182608-14903050	Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	nsv831517	chr9:14512924-14738206	Enhancers Genic enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv613637	chr9:14524438-15011915	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	esv3362157	chr9:14542189-14791977	ZNF genes & repeats Enhancers Weak transcription Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv521363	chr9:14566406-14691897	ZNF genes & repeats Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	esv3380008	chr9:14573378-14615933	Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv892605	chr9:14585052-14709151	Weak transcription Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10961599	ZDHHC21	cis	lymphoblastoid	seeQTL

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:14577400-14597200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr9:14577600-14596200	Weak transcription	Pancreas	Pancrea
3	chr9:14582400-14596200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr9:14585200-14586200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
5	chr9:14585200-14587200	Enhancers	GM12878-XiMat	blood
6	chr9:14585200-14589000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr9:14585400-14586200	Enhancers	Primary B cells from peripheral blood	blood
8	chr9:14585400-14586200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
9	chr9:14585400-14586200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
10	chr9:14585400-14586400	Enhancers	Primary T helper naive cells from peripheral blood	blood
11	chr9:14585400-14586400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
12	chr9:14585400-14586400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
13	chr9:14585400-14586800	Enhancers	Primary T cells from cord blood	blood
14	chr9:14585600-14586000	Enhancers	Primary T cells fromperipheralblood	blood
15	chr9:14585600-14586000	Enhancers	Primary T helper cells PMA-I stimulated	--
16	chr9:14585600-14586000	Enhancers	Primary T helper cells fromperipheralblood	blood
17	chr9:14585600-14586400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
18	chr9:14585800-14586000	Enhancers	Lung	lung
19	chr9:14585800-14586200	Enhancers	Dnd41	blood
20	chr9:14585800-14586400	Enhancers	Brain Germinal Matrix	brain
21	chr9:14585800-14586800	Enhancers	Cortex derived primary cultured neurospheres	brain
22	chr9:14585800-14598000	Weak transcription	Right Ventricle	heart

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