Variant report

Variant	rs12111052
Chromosome Location	chr6:64062411-64062412
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:64052335..64054049-chr6:64060592..64063155,2	MCF-7	breast:
2	chr6:64061604..64062576-chr6:64512267..64512790,2	MCF-7	breast:
3	chr6:64060326..64062411-chr6:64092797..64095365,2	K562	blood:
4	chr6:64061851..64067000-chr6:64282014..64286349,7	MCF-7	breast:
5	chr6:64061577..64062551-chr6:64473988..64474844,2	MCF-7	breast:
6	chr6:64061712..64062525-chr6:64473904..64474743,3	MCF-7	breast:
7	chr6:64059286..64067591-chr6:64279675..64285580,14	MCF-7	breast:
8	chr6:64062103..64065068-chr6:64510364..64512443,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000112245	Chromatin interaction
ENSG00000266680	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs12111159	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12111218	0.86[YRI][hapmap];0.85[AFR][1000 genomes]
rs12111488	1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12111559	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs35691434	0.86[AFR][1000 genomes]
rs57192996	0.85[AFR][1000 genomes]
rs60018171	0.85[AFR][1000 genomes]
rs6926934	0.81[AFR][1000 genomes]
rs7764987	0.88[YRI][hapmap];0.85[AFR][1000 genomes]
rs7776434	0.86[YRI][hapmap];0.85[AFR][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	nsv1019831	chr6:63279677-64230736	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv538270	chr6:63682752-64147241	Flanking Active TSS Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv1031548	chr6:64026862-64102045	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	nsv1030651	chr6:64028392-64102045	Enhancers ZNF genes & repeats Genic enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:64040400-64071200	Weak transcription	Placenta	Placenta
2	chr6:64059800-64062800	Weak transcription	Adipose Nuclei	Adipose
3	chr6:64060800-64064400	Enhancers	A549	lung
4	chr6:64061400-64062600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr6:64062000-64062600	Enhancers	Duodenum Mucosa	Duodenum
6	chr6:64062000-64062600	Flanking Active TSS	GM12878-XiMat	blood
7	chr6:64062000-64062800	Enhancers	Primary monocytes fromperipheralblood	blood
8	chr6:64062000-64062800	Enhancers	Primary B cells from peripheral blood	blood
9	chr6:64062000-64063000	Enhancers	NHLF	lung
10	chr6:64062000-64063400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr6:64062000-64063400	Enhancers	HUVEC	blood vessel
12	chr6:64062000-64063400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
13	chr6:64062000-64064200	Enhancers	HepG2	liver
14	chr6:64062200-64062600	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
15	chr6:64062200-64062600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr6:64062200-64062600	Flanking Active TSS	Liver	Liver
17	chr6:64062200-64062800	Enhancers	Rectal Mucosa Donor 31	rectum
18	chr6:64062200-64063000	Enhancers	Muscle Satellite Cultured Cells	--
19	chr6:64062200-64063000	Enhancers	Brain Hippocampus Middle	brain
20	chr6:64062200-64063000	Enhancers	Osteobl	bone
21	chr6:64062200-64063200	Flanking Active TSS	Primary hematopoietic stem cells	blood
22	chr6:64062200-64063200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr6:64062200-64063200	Enhancers	Spleen	Spleen
24	chr6:64062200-64063400	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
25	chr6:64062200-64063400	Flanking Active TSS	Primary B cells from cord blood	blood
26	chr6:64062200-64063400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
27	chr6:64062200-64063400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
28	chr6:64062200-64063400	Enhancers	Fetal Intestine Small	intestine
29	chr6:64062200-64063400	Enhancers	Rectal Mucosa Donor 29	rectum
30	chr6:64062200-64063400	Enhancers	Rectal Smooth Muscle	rectum
31	chr6:64062200-64063400	Enhancers	Sigmoid Colon	Sigmoid Colon
32	chr6:64062200-64063400	Flanking Active TSS	Hela-S3	cervix
33	chr6:64062200-64063400	Enhancers	NHDF-Ad	bronchial
34	chr6:64062400-64062600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
35	chr6:64062400-64062600	Flanking Active TSS	Pancreatic Islets	Pancreatic Islet
36	chr6:64062400-64062800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr6:64062400-64062800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
38	chr6:64062400-64062800	Enhancers	Ovary	ovary
39	chr6:64062400-64063000	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr6:64062400-64063000	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
41	chr6:64062400-64063200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
42	chr6:64062400-64063400	Enhancers	Colonic Mucosa	Colon
43	chr6:64062400-64063400	Enhancers	Fetal Intestine Large	intestine
44	chr6:64062400-64063400	Enhancers	Skeletal Muscle Female	skeletal muscle
45	chr6:64062400-64063400	Enhancers	Stomach Mucosa	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links