Variant report

Variant	rs58926232
Chromosome Location	chr6:106563612-106563613
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:106544729..106547210-chr6:106561631..106564573,3	K562	blood:
2	chr6:106560644..106566595-chr6:106567704..106572815,8	K562	blood:
3	chr6:106560146..106562675-chr6:106563041..106565107,2	K562	blood:
4	chr6:106562714..106568673-chr6:106569146..106572965,6	K562	blood:
5	chr6:106562594..106564776-chr6:106574919..106578759,3	K562	blood:

Variant related genes	Relation type
ENSG00000057657	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs11152965	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs507532	0.84[AMR][1000 genomes]
rs535490	0.95[AFR][1000 genomes]
rs541217	0.95[AFR][1000 genomes]
rs567826	0.82[AFR][1000 genomes]
rs58550282	0.98[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9486285	1.00[ASN][1000 genomes]
rs9486287	1.00[ASN][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	nsv932155	chr6:106281728-107030467	Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv1025231	chr6:106451012-106634389	Enhancers Active TSS Strong transcription Flanking Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv830755	chr6:106461705-106624202	Weak transcription Active TSS Bivalent Enhancer Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
4	nsv1025900	chr6:106529777-106898421	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
5	nsv1018270	chr6:106531658-106908606	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
6	nsv538399	chr6:106531658-106908606	Flanking Active TSS Active TSS Enhancers Strong transcription Genic enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
7	esv1832544	chr6:106539914-106642993	Enhancers Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
8	nsv1035110	chr6:106557281-106802212	Enhancers Strong transcription ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
9	nsv538400	chr6:106557281-106802212	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:106546800-106567000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr6:106551600-106563800	Weak transcription	Brain Cingulate Gyrus	brain
3	chr6:106551800-106564000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr6:106551800-106564000	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr6:106553600-106584000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr6:106554600-106566800	Weak transcription	Hela-S3	cervix
7	chr6:106554800-106564000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr6:106555200-106563800	Weak transcription	Esophagus	oesophagus
9	chr6:106555200-106564200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr6:106555200-106564400	Weak transcription	Ovary	ovary
11	chr6:106555400-106565000	Weak transcription	Primary neutrophils fromperipheralblood	blood
12	chr6:106556000-106564000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr6:106556400-106563800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr6:106556400-106563800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr6:106556400-106567400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr6:106557200-106567200	Weak transcription	Fetal Intestine Large	intestine
17	chr6:106557600-106567400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr6:106558800-106563800	Weak transcription	Lung	lung
19	chr6:106559200-106567200	Enhancers	Primary T helper cells fromperipheralblood	blood
20	chr6:106559200-106574200	Weak transcription	Small Intestine	intestine
21	chr6:106559600-106567200	Enhancers	Primary T killer memory cells from peripheral blood	blood
22	chr6:106560200-106564200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr6:106560200-106567800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
24	chr6:106560800-106567200	Enhancers	Primary T helper naive cells from peripheral blood	blood
25	chr6:106561000-106564200	Weak transcription	Brain Germinal Matrix	brain
26	chr6:106561000-106564200	Weak transcription	Dnd41	blood
27	chr6:106561000-106564800	Weak transcription	Monocytes-CD14+_RO01746	blood
28	chr6:106561400-106567400	Weak transcription	Fetal Intestine Small	intestine
29	chr6:106561600-106567000	Weak transcription	Rectal Mucosa Donor 31	rectum
30	chr6:106561800-106563800	Weak transcription	Osteobl	bone
31	chr6:106561800-106564200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
32	chr6:106561800-106564400	Weak transcription	Colon Smooth Muscle	Colon
33	chr6:106561800-106564800	Weak transcription	Primary monocytes fromperipheralblood	blood
34	chr6:106561800-106564800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
35	chr6:106562000-106564000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
36	chr6:106562000-106564000	Weak transcription	NHDF-Ad	bronchial
37	chr6:106562000-106564400	Weak transcription	Brain Hippocampus Middle	brain
38	chr6:106562000-106564600	Weak transcription	Primary hematopoietic stem cells	blood
39	chr6:106562000-106567400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr6:106562400-106565000	Enhancers	Placenta	Placenta
41	chr6:106562600-106567200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
42	chr6:106562800-106565200	Enhancers	Breast Myoepithelial Primary Cells	Breast
43	chr6:106563000-106564400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr6:106563000-106564400	Enhancers	Muscle Satellite Cultured Cells	--
45	chr6:106563000-106564400	Enhancers	HSMMtube	muscle
46	chr6:106563000-106565000	Enhancers	Primary T helper cells PMA-I stimulated	--
47	chr6:106563000-106567400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
48	chr6:106563200-106564400	Enhancers	Adipose Nuclei	Adipose
49	chr6:106563200-106564600	Enhancers	Fetal Muscle Leg	muscle
50	chr6:106563200-106564600	Enhancers	GM12878-XiMat	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links