Variant report

Variant	rs9881789
Chromosome Location	chr3:56621727-56621728
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:56619803..56621869-chr3:56626645..56628418,2	K562	blood:

Variant related genes	Relation type
ENSG00000180376	Chromatin interaction

Extended variants
information (count: 77 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:72)

rs_ID	r²[population]
rs10222449	0.85[EUR][1000 genomes]
rs10222462	0.85[EUR][1000 genomes]
rs1045926	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10865998	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10865999	0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10866000	0.87[ASN][1000 genomes]
rs11130536	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11130538	0.88[ASN][1000 genomes]
rs11706624	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11715395	0.91[AFR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11719656	0.83[ASN][1000 genomes]
rs11921326	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12488218	0.83[ASN][1000 genomes]
rs12490749	0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12636392	0.85[EUR][1000 genomes]
rs12636773	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12715490	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13094666	0.88[ASN][1000 genomes]
rs13097030	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13097288	0.81[ASN][1000 genomes]
rs1352766	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1388251	0.85[EUR][1000 genomes]
rs1491166	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17056878	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17216740	0.80[AFR][1000 genomes];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2004199	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2029464	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2035798	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2054987	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2054988	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2291499	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2291501	0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2317133	0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2317245	0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28407059	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3732512	0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs4093514	0.85[AFR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4681951	0.85[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4681963	0.82[AFR][1000 genomes];0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4974220	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4974224	0.92[AFR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs66529035	0.83[ASN][1000 genomes]
rs6765870	0.93[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs6774323	0.90[AFR][1000 genomes];0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6784100	0.88[EUR][1000 genomes]
rs6785479	0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6790915	0.85[EUR][1000 genomes]
rs6798118	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6799576	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6802051	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6804262	0.87[ASN][1000 genomes]
rs6805469	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72877266	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7612599	0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7626378	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7629559	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7647272	0.85[EUR][1000 genomes]
rs9811046	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9820759	0.88[ASN][1000 genomes]
rs9836539	0.88[EUR][1000 genomes]
rs9840528	0.86[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs9842283	0.83[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs9845096	0.81[AFR][1000 genomes];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9845655	0.88[ASN][1000 genomes]
rs9846282	0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9858728	0.88[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs9862490	0.98[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9881005	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9881154	0.87[ASN][1000 genomes]
rs9881961	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9985253	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9985254	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv876817	chr3:56517253-56649282	Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv460557	chr3:56594735-56661320	Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Enhancers Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
3	nsv590362	chr3:56594735-56661320	ZNF genes & repeats Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
4	nsv435762	chr3:56607518-56622066	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv528087	chr3:56608033-56628031	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56592400-56639800	Weak transcription	Right Ventricle	heart
2	chr3:56592400-56644800	Weak transcription	Small Intestine	intestine
3	chr3:56592800-56644600	Weak transcription	Fetal Heart	heart
4	chr3:56600600-56640000	Weak transcription	NHLF	lung
5	chr3:56603000-56631600	Weak transcription	Fetal Brain Male	brain
6	chr3:56603200-56650400	Weak transcription	K562	blood
7	chr3:56603600-56640000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr3:56604200-56627600	Weak transcription	Brain Angular Gyrus	brain
9	chr3:56604600-56624600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
10	chr3:56604600-56625000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
11	chr3:56604600-56625800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
12	chr3:56604600-56627600	Weak transcription	HUVEC	blood vessel
13	chr3:56605600-56639600	Weak transcription	Pancreas	Pancrea
14	chr3:56605800-56639400	Weak transcription	Spleen	Spleen
15	chr3:56605800-56639600	Weak transcription	Esophagus	oesophagus
16	chr3:56606000-56627600	Weak transcription	Brain Cingulate Gyrus	brain
17	chr3:56606000-56627600	Weak transcription	Left Ventricle	heart
18	chr3:56606000-56629200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr3:56606200-56650200	Weak transcription	Colonic Mucosa	Colon
20	chr3:56606600-56627800	Weak transcription	Skeletal Muscle Male	skeletal muscle
21	chr3:56606800-56624000	Weak transcription	Brain Substantia Nigra	brain
22	chr3:56606800-56627600	Weak transcription	Osteobl	bone
23	chr3:56607000-56624200	Weak transcription	HepG2	liver
24	chr3:56607000-56624400	Weak transcription	NH-A	brain
25	chr3:56607600-56627200	Weak transcription	Skeletal Muscle Female	skeletal muscle
26	chr3:56607800-56624000	Weak transcription	HMEC	breast
27	chr3:56607800-56624200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr3:56607800-56627400	Weak transcription	Brain Anterior Caudate	brain
29	chr3:56607800-56627600	Weak transcription	Muscle Satellite Cultured Cells	--
30	chr3:56607800-56627600	Weak transcription	Brain Inferior Temporal Lobe	brain
31	chr3:56607800-56627600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
32	chr3:56607800-56627600	Weak transcription	NHDF-Ad	bronchial
33	chr3:56607800-56627800	Weak transcription	Primary B cells from peripheral blood	blood
34	chr3:56607800-56629800	Weak transcription	Sigmoid Colon	Sigmoid Colon
35	chr3:56607800-56639800	Weak transcription	HSMMtube	muscle
36	chr3:56607800-56650200	Weak transcription	Psoas Muscle	Psoas
37	chr3:56608200-56627600	Weak transcription	Stomach Smooth Muscle	stomach
38	chr3:56608600-56624000	Weak transcription	Primary neutrophils fromperipheralblood	blood
39	chr3:56609000-56626800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
40	chr3:56609400-56624000	Weak transcription	Ovary	ovary
41	chr3:56609400-56638600	Weak transcription	Brain Hippocampus Middle	brain
42	chr3:56609600-56624400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr3:56610000-56627600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
44	chr3:56610000-56627600	Weak transcription	HSMM	muscle
45	chr3:56610200-56625400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
46	chr3:56616200-56633800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
47	chr3:56616400-56624000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
48	chr3:56616400-56639400	Weak transcription	Lung	lung
49	chr3:56616600-56625400	Weak transcription	Primary T cells from cord blood	blood
50	chr3:56616600-56627000	Weak transcription	Liver	Liver

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