Variant report

Variant	rs9658769
Chromosome Location	chr10:90773363-90773364
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MAFK	chr10:90773139-90773370	HepG2	liver:	n/a	n/a

Variant related genes	Relation type
ENSG00000261438	TF binding region

Extended variants
information (count: 42 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10788628	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10887876	1.00[CEU][hapmap];0.95[JPT][hapmap]
rs10887878	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10887885	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10887886	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11202922	1.00[CEU][hapmap]
rs11202926	0.89[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs11202928	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11202931	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1159120	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1324551	0.82[JPT][hapmap]
rs1468063	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1810763	0.82[ASN][1000 genomes]
rs2147418	0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2296601	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2296602	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2296604	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2862830	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2862831	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2862832	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2862833	0.83[ASN][1000 genomes]
rs35150762	0.83[ASN][1000 genomes]
rs3752985	0.83[CHB][hapmap];0.84[ASN][1000 genomes]
rs4934433	0.82[JPT][hapmap]
rs6586160	0.83[JPT][hapmap]
rs6586161	0.86[JPT][hapmap]
rs6586163	0.80[JPT][hapmap]
rs7097467	1.00[CEU][hapmap];0.95[JPT][hapmap]
rs7896789	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7911226	0.87[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs7914779	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7915235	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7920305	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs874144	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs874145	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9325603	1.00[CEU][hapmap];0.95[JPT][hapmap]
rs9658767	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.95[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs982764	0.87[AFR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	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
3	nsv831943	chr10:90664836-90865834	Weak transcription Flanking Active TSS Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv551841	chr10:90759724-90775756	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9658769	TNFRSF6	cis	multi-tissue	Pritchard

Chromatin state (count:101 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90752800-90773400	Weak transcription	Brain Cingulate Gyrus	brain
2	chr10:90754000-90779400	Weak transcription	HepG2	liver
3	chr10:90754000-90789600	Weak transcription	A549	lung
4	chr10:90755600-90776000	Weak transcription	Left Ventricle	heart
5	chr10:90755600-90776200	Weak transcription	Pancreas	Pancrea
6	chr10:90756200-90781800	Weak transcription	Stomach Mucosa	stomach
7	chr10:90760400-90780400	Weak transcription	Brain Angular Gyrus	brain
8	chr10:90761600-90779000	Weak transcription	Dnd41	blood
9	chr10:90761600-90779400	Weak transcription	Primary hematopoietic stem cells	blood
10	chr10:90761800-90774200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr10:90761800-90776200	Weak transcription	Right Ventricle	heart
12	chr10:90761800-90779600	Weak transcription	HSMMtube	muscle
13	chr10:90761800-90779800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr10:90761800-90783800	Weak transcription	Gastric	stomach
15	chr10:90761800-90786200	Strong transcription	Monocytes-CD14+_RO01746	blood
16	chr10:90762000-90775600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr10:90762400-90775400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr10:90762400-90785800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr10:90762600-90773600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr10:90762600-90777400	Strong transcription	Primary monocytes fromperipheralblood	blood
21	chr10:90762600-90779400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr10:90762600-90780400	Weak transcription	Brain Hippocampus Middle	brain
23	chr10:90762600-90786000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
24	chr10:90762800-90773400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr10:90762800-90778400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr10:90762800-90781000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr10:90762800-90782000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
28	chr10:90763000-90779600	Weak transcription	Primary B cells from peripheral blood	blood
29	chr10:90763400-90777600	Strong transcription	NHDF-Ad	bronchial
30	chr10:90763600-90773600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr10:90763600-90780800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr10:90766000-90780400	Weak transcription	Brain Inferior Temporal Lobe	brain
33	chr10:90766200-90785600	Strong transcription	GM12878-XiMat	blood
34	chr10:90766800-90776600	Strong transcription	HMEC	breast
35	chr10:90767200-90774600	Strong transcription	Hela-S3	cervix
36	chr10:90767200-90776800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr10:90767200-90778000	Strong transcription	Muscle Satellite Cultured Cells	--
38	chr10:90767400-90775600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
39	chr10:90767400-90778000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
40	chr10:90767400-90779000	Strong transcription	Liver	Liver
41	chr10:90767400-90781000	Strong transcription	Osteobl	bone
42	chr10:90767600-90776800	Strong transcription	Primary T helper cells fromperipheralblood	blood
43	chr10:90767600-90778800	Weak transcription	HUES64 Cell Line	embryonic stem cell
44	chr10:90767600-90780800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
45	chr10:90767600-90786600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
46	chr10:90767800-90777400	Weak transcription	Fetal Intestine Small	intestine
47	chr10:90767800-90779600	Strong transcription	Primary neutrophils fromperipheralblood	blood
48	chr10:90767800-90781800	Weak transcription	Small Intestine	intestine
49	chr10:90768000-90774600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
50	chr10:90768000-90776200	Strong transcription	HSMM	muscle

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