Variant report

Variant	rs58090060
Chromosome Location	chr9:86609099-86609100
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:86592736..86597542-chr9:86606160..86610925,6	K562	blood:

Variant related genes	Relation type
ENSG00000165119	Chromatin interaction
ENSG00000178966	Chromatin interaction

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs57364890	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57371575	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57996505	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59038995	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59227663	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59962995	1.00[AMR][1000 genomes]
rs60035746	1.00[AMR][1000 genomes]
rs60639174	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60889426	1.00[AMR][1000 genomes]
rs61372781	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61708723	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6559755	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6559759	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7035469	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7038536	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73469353	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73469354	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73469361	1.00[AMR][1000 genomes]
rs73469367	1.00[AMR][1000 genomes]
rs73469373	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73469375	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73469382	1.00[AMR][1000 genomes]
rs73469388	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471355	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471356	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471359	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471374	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471377	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471381	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471387	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471388	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471390	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73473366	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73473369	1.00[AMR][1000 genomes]
rs73473371	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7856484	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7872631	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7875551	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv831644	chr9:86534310-86704395	Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
2	nsv893514	chr9:86584160-86678917	Strong transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Weak transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
3	esv3386299	chr9:86608775-86613713	Weak transcription Strong transcription Enhancers	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:95 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:86596400-86632400	Weak transcription	Spleen	Spleen
2	chr9:86596600-86610600	Weak transcription	Esophagus	oesophagus
3	chr9:86596600-86613400	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr9:86596600-86613800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr9:86596600-86616000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr9:86596600-86617000	Weak transcription	Lung	lung
7	chr9:86596600-86618200	Weak transcription	Ovary	ovary
8	chr9:86596600-86619600	Weak transcription	Gastric	stomach
9	chr9:86596800-86613200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr9:86596800-86614400	Weak transcription	HSMMtube	muscle
11	chr9:86596800-86616000	Weak transcription	Brain Hippocampus Middle	brain
12	chr9:86596800-86616200	Weak transcription	Brain Angular Gyrus	brain
13	chr9:86596800-86616200	Weak transcription	Skeletal Muscle Female	skeletal muscle
14	chr9:86596800-86619600	Weak transcription	Small Intestine	intestine
15	chr9:86596800-86621400	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr9:86596800-86621600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr9:86597000-86609600	Weak transcription	Primary T cells from cord blood	blood
18	chr9:86597000-86614200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr9:86597000-86616000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr9:86597000-86616000	Weak transcription	Fetal Lung	lung
21	chr9:86597000-86617200	Weak transcription	Primary T helper cells fromperipheralblood	blood
22	chr9:86597000-86621200	Weak transcription	Stomach Smooth Muscle	stomach
23	chr9:86597000-86621600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
24	chr9:86597200-86614200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr9:86597200-86615400	Weak transcription	NHDF-Ad	bronchial
26	chr9:86597200-86616000	Weak transcription	Fetal Kidney	kidney
27	chr9:86597200-86616800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
28	chr9:86597200-86619000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
29	chr9:86597400-86628800	Weak transcription	Sigmoid Colon	Sigmoid Colon
30	chr9:86597600-86615800	Weak transcription	Fetal Muscle Trunk	muscle
31	chr9:86597800-86610400	Weak transcription	Fetal Brain Male	brain
32	chr9:86598000-86615800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr9:86598400-86614200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
34	chr9:86598600-86615400	Weak transcription	HUVEC	blood vessel
35	chr9:86598800-86622400	Weak transcription	Brain Germinal Matrix	brain
36	chr9:86602000-86614400	Weak transcription	Primary B cells from peripheral blood	blood
37	chr9:86602000-86616000	Weak transcription	Primary hematopoietic stem cells	blood
38	chr9:86602000-86616000	Weak transcription	Duodenum Mucosa	Duodenum
39	chr9:86602000-86620800	Weak transcription	NHLF	lung
40	chr9:86602000-86623200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
41	chr9:86602200-86610600	Weak transcription	Primary neutrophils fromperipheralblood	blood
42	chr9:86602200-86610800	Weak transcription	Fetal Heart	heart
43	chr9:86602200-86616000	Weak transcription	HSMM	muscle
44	chr9:86602200-86617400	Weak transcription	Osteobl	bone
45	chr9:86602200-86618000	Weak transcription	NHEK	skin
46	chr9:86602200-86618200	Weak transcription	Placenta	Placenta
47	chr9:86602400-86616000	Weak transcription	Primary B cells from cord blood	blood
48	chr9:86602400-86616000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
49	chr9:86602400-86616200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
50	chr9:86602400-86618000	Weak transcription	Primary T cells fromperipheralblood	blood

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