Variant report

Variant	rs9496040
Chromosome Location	chr6:141805567-141805568
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10080835	1.00[AMR][1000 genomes]
rs10080954	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58606500	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7740755	1.00[AMR][1000 genomes]
rs9484513	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496034	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496035	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496036	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496038	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496039	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496041	1.00[AFR][1000 genomes]
rs9496042	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496043	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496046	0.94[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1019459	chr6:141051249-141862727	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv538453	chr6:141051249-141862727	ZNF genes & repeats Flanking Active TSS Strong transcription Weak transcription Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv532070	chr6:141057326-141865359	Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv1025922	chr6:141090901-141865360	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv538454	chr6:141090901-141865360	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv1029550	chr6:141372610-142029669	ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
7	nsv1015835	chr6:141713451-142233317	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
8	nsv538455	chr6:141713451-142233317	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
9	esv2755719	chr6:141721907-142123546	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:141803800-141806000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr6:141803800-141806000	Flanking Active TSS	Dnd41	blood
3	chr6:141803800-141806200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr6:141803800-141806200	Active TSS	Right Atrium	heart
5	chr6:141804000-141806200	Enhancers	Fetal Thymus	thymus
6	chr6:141804600-141806200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr6:141804600-141807000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
8	chr6:141804800-141805600	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr6:141804800-141806200	Enhancers	Primary T killer memory cells from peripheral blood	blood
10	chr6:141805000-141805600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr6:141805000-141805600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr6:141805000-141805600	Weak transcription	Duodenum Mucosa	Duodenum
13	chr6:141805000-141805800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr6:141805000-141805800	Flanking Active TSS	Primary B cells from cord blood	blood
15	chr6:141805000-141805800	Weak transcription	Brain Germinal Matrix	brain
16	chr6:141805000-141805800	Enhancers	Fetal Brain Male	brain
17	chr6:141805000-141806200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
18	chr6:141805000-141806200	Enhancers	Muscle Satellite Cultured Cells	--
19	chr6:141805000-141806200	Enhancers	HMEC	breast
20	chr6:141805200-141805600	Enhancers	Primary monocytes fromperipheralblood	blood
21	chr6:141805200-141805600	Active TSS	NHEK	skin
22	chr6:141805200-141805800	Enhancers	Pancreatic Islets	Pancreatic Islet
23	chr6:141805200-141805800	Enhancers	Fetal Muscle Trunk	muscle
24	chr6:141805200-141805800	Enhancers	Skeletal Muscle Male	skeletal muscle
25	chr6:141805200-141805800	Weak transcription	Skeletal Muscle Female	skeletal muscle
26	chr6:141805200-141805800	Enhancers	Thymus	Thymus
27	chr6:141805200-141805800	Enhancers	NH-A	brain
28	chr6:141805200-141806000	Enhancers	HUVEC	blood vessel
29	chr6:141805200-141806000	Weak transcription	NHLF	lung
30	chr6:141805200-141806200	Enhancers	Primary T cells fromperipheralblood	blood
31	chr6:141805200-141806200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr6:141805200-141806200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr6:141805200-141806200	Enhancers	HSMM	muscle
34	chr6:141805200-141806800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
35	chr6:141805200-141807000	Enhancers	Primary hematopoietic stem cells	blood
36	chr6:141805200-141807000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
37	chr6:141805200-141807000	Enhancers	Primary T helper naive cells from peripheral blood	blood
38	chr6:141805200-141807000	Enhancers	Primary T helper cells fromperipheralblood	blood
39	chr6:141805200-141809400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr6:141805200-141809600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr6:141805400-141805600	Enhancers	Primary T helper cells PMA-I stimulated	--
42	chr6:141805400-141805600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr6:141805400-141805600	Weak transcription	GM12878-XiMat	blood
44	chr6:141805400-141805800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
45	chr6:141805400-141805800	Enhancers	Primary B cells from peripheral blood	blood
46	chr6:141805400-141805800	Enhancers	Stomach Smooth Muscle	stomach
47	chr6:141805400-141805800	Enhancers	Monocytes-CD14+_RO01746	blood
48	chr6:141805400-141806000	Enhancers	Adipose Nuclei	Adipose
49	chr6:141805400-141806200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr6:141805400-141806200	Enhancers	Primary T cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links