Variant report

Variant	rs7075778
Chromosome Location	chr10:5967906-5967907
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs1052420	0.93[CEU][hapmap];1.00[MEX][hapmap]
rs1323659	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.91[TSI][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1707228	1.00[MEX][hapmap]
rs2274030	0.81[CEU][hapmap]
rs2387148	0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2669124	0.82[CEU][hapmap];1.00[MEX][hapmap];0.83[EUR][1000 genomes]
rs2669127	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2985042	0.93[CEU][hapmap];1.00[MEX][hapmap]
rs2985043	0.93[CEU][hapmap];1.00[MEX][hapmap]
rs2985044	0.93[CEU][hapmap];1.00[MEX][hapmap]
rs593026	0.82[CEU][hapmap];1.00[MEX][hapmap];0.83[EUR][1000 genomes]
rs596156	0.82[CEU][hapmap];1.00[MEX][hapmap];0.83[EUR][1000 genomes]
rs599394	0.93[CEU][hapmap]
rs600706	0.80[CEU][hapmap]
rs608197	0.93[CEU][hapmap];1.00[MEX][hapmap]
rs609269	0.82[CEU][hapmap];0.83[EUR][1000 genomes]
rs615879	0.93[CEU][hapmap]
rs617165	0.93[CEU][hapmap]
rs622252	0.93[CEU][hapmap];1.00[MEX][hapmap]
rs626040	0.93[CEU][hapmap];1.00[MEX][hapmap]
rs628844	0.87[CEU][hapmap]
rs631947	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs632639	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs641034	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs644474	0.82[CEU][hapmap];0.82[EUR][1000 genomes]
rs646406	0.82[CEU][hapmap];1.00[MEX][hapmap];0.83[EUR][1000 genomes]
rs646490	0.81[CEU][hapmap];1.00[MEX][hapmap];0.83[EUR][1000 genomes]
rs647391	0.82[EUR][1000 genomes]
rs661411	0.93[CEU][hapmap]
rs662701	0.93[CEU][hapmap];1.00[MEX][hapmap]
rs664577	0.82[CEU][hapmap];1.00[MEX][hapmap];0.83[EUR][1000 genomes]
rs666831	0.85[CEU][hapmap];0.82[EUR][1000 genomes]
rs673496	0.82[CEU][hapmap];1.00[MEX][hapmap];0.83[EUR][1000 genomes]
rs675416	0.81[CEU][hapmap];1.00[MEX][hapmap];0.83[EUR][1000 genomes]
rs679610	0.82[CEU][hapmap];0.82[EUR][1000 genomes]
rs682555	0.93[CEU][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs792347	0.80[CEU][hapmap];0.83[EUR][1000 genomes]
rs811561	0.93[CEU][hapmap]
rs9329328	0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv34147	chr10:5726821-6105717	Strong transcription Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	esv34061	chr10:5726821-6225187	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	nsv1042286	chr10:5795129-6578445	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
4	nsv831775	chr10:5804335-6000849	Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
5	nsv1041261	chr10:5962635-6052196	Weak transcription Active TSS Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv1050983	chr10:5963921-6052196	Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7075778	FBXO18	cis	multi-tissue	Pritchard

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:5933200-5977000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr10:5944000-5981600	Strong transcription	Fetal Intestine Small	intestine
3	chr10:5944600-5981200	Strong transcription	Fetal Thymus	thymus
4	chr10:5945800-5980800	Strong transcription	Thymus	Thymus
5	chr10:5947000-5980800	Strong transcription	Rectal Mucosa Donor 29	rectum
6	chr10:5947000-5981600	Strong transcription	Placenta	Placenta
7	chr10:5947200-5981000	Strong transcription	Fetal Intestine Large	intestine
8	chr10:5947400-5970800	Strong transcription	Liver	Liver
9	chr10:5947400-5974400	Strong transcription	Monocytes-CD14+_RO01746	blood
10	chr10:5947400-5981200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr10:5947600-5968400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr10:5947600-5968600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr10:5947600-5968600	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr10:5947600-5975000	Strong transcription	Primary T cells from cord blood	blood
15	chr10:5947600-5981000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr10:5947600-5981000	Strong transcription	HUES6 Cell Line	embryonic stem cell
17	chr10:5947600-5981000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
18	chr10:5947600-5981000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr10:5947600-5981200	Strong transcription	Primary B cells from peripheral blood	blood
20	chr10:5947800-5974000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
21	chr10:5947800-5974400	Strong transcription	Primary monocytes fromperipheralblood	blood
22	chr10:5947800-5974600	Strong transcription	HUES48 Cell Line	embryonic stem cell
23	chr10:5948000-5974600	Strong transcription	Fetal Lung	lung
24	chr10:5948000-5974800	Strong transcription	Cortex derived primary cultured neurospheres	brain
25	chr10:5948000-5975000	Strong transcription	Primary B cells from cord blood	blood
26	chr10:5948000-5975800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
27	chr10:5948200-5974000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
28	chr10:5948200-5974800	Strong transcription	Primary T helper cells fromperipheralblood	blood
29	chr10:5948400-5981000	Strong transcription	Duodenum Smooth Muscle	Duodenum
30	chr10:5948400-5981000	Strong transcription	Stomach Smooth Muscle	stomach
31	chr10:5948600-5981000	Strong transcription	Primary T cells fromperipheralblood	blood
32	chr10:5948800-5974200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
33	chr10:5948800-5981000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
34	chr10:5948800-5981000	Strong transcription	Duodenum Mucosa	Duodenum
35	chr10:5948800-5981600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr10:5949400-5970200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr10:5949600-5975600	Strong transcription	Primary neutrophils fromperipheralblood	blood
38	chr10:5949800-5973400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
39	chr10:5949800-5975000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
40	chr10:5950000-5976400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
41	chr10:5950000-5980400	Strong transcription	Dnd41	blood
42	chr10:5950200-5975800	Strong transcription	Brain Germinal Matrix	brain
43	chr10:5950200-5981000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr10:5950600-5968600	Strong transcription	Osteobl	bone
45	chr10:5950600-5968800	Strong transcription	Brain Cingulate Gyrus	brain
46	chr10:5950600-5973200	Strong transcription	Primary T helper cells PMA-I stimulated	--
47	chr10:5950600-5973600	Strong transcription	H1 Cell Line	embryonic stem cell
48	chr10:5950600-5974600	Strong transcription	Rectal Mucosa Donor 31	rectum
49	chr10:5950600-5975200	Strong transcription	Primary hematopoietic stem cells	blood
50	chr10:5950600-5981000	Strong transcription	HUES64 Cell Line	embryonic stem cell

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