Variant report

Variant	rs10881068
Chromosome Location	chr12:47582695-47582696
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:47472804..47476649-chr12:47581153..47583704,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000139211	Chromatin interaction
ENSG00000179715	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10748465	0.83[EUR][1000 genomes]
rs10748466	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10785663	0.85[CEU][hapmap];0.91[CHB][hapmap];0.85[JPT][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10785664	0.81[JPT][hapmap];0.85[ASN][1000 genomes]
rs10785665	0.81[ASN][1000 genomes]
rs10785667	0.81[ASN][1000 genomes]
rs10785668	0.81[ASN][1000 genomes]
rs10881048	0.82[ASW][hapmap];1.00[LWK][hapmap]
rs10881066	0.85[ASN][1000 genomes]
rs10881067	0.85[ASN][1000 genomes]
rs10881069	0.84[CHD][hapmap];0.84[ASN][1000 genomes]
rs10881071	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10881076	0.83[EUR][1000 genomes]
rs12228020	0.89[JPT][hapmap]
rs1404817	0.82[ASN][1000 genomes]
rs1404818	0.82[ASN][1000 genomes]
rs2193721	0.85[EUR][1000 genomes]
rs4768143	0.81[ASN][1000 genomes]
rs4768778	0.83[ASN][1000 genomes]
rs4768779	0.81[ASN][1000 genomes]
rs4768780	0.81[ASN][1000 genomes]
rs4768781	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv469368	chr12:47374908-47675680	Enhancers Genic enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv558784	chr12:47374908-47675680	Genic enhancers Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
3	nsv832399	chr12:47502910-47689601	Genic enhancers Enhancers Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	esv2751100	chr12:47541390-47746157	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
5	nsv976743	chr12:47573169-47582750	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers	TF binding region Chromatin interactive region miRNA	3 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10881068	HDAC7	cis	cerebellum	SCAN

Chromatin state (count:73 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:47551200-47583600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr12:47570600-47582800	Weak transcription	Colon Smooth Muscle	Colon
3	chr12:47578200-47587800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr12:47578400-47583800	Enhancers	Breast Myoepithelial Primary Cells	Breast
5	chr12:47579200-47583400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr12:47579200-47584000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr12:47579400-47583400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr12:47579400-47583800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr12:47579400-47584200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr12:47579400-47584400	Weak transcription	Esophagus	oesophagus
11	chr12:47579600-47583000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr12:47579800-47583000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr12:47579800-47583600	Weak transcription	HMEC	breast
14	chr12:47580200-47584400	Enhancers	Primary T killer memory cells from peripheral blood	blood
15	chr12:47580400-47584000	Enhancers	Primary T helper cells PMA-I stimulated	--
16	chr12:47580400-47584400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
17	chr12:47580600-47583000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr12:47580800-47585600	Enhancers	Primary T helper cells fromperipheralblood	blood
19	chr12:47581000-47582800	Weak transcription	Primary B cells from cord blood	blood
20	chr12:47581000-47585800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
21	chr12:47581600-47582800	Genic enhancers	Primary T helper naive cells from peripheral blood	blood
22	chr12:47581800-47582800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
23	chr12:47581800-47584600	Enhancers	Liver	Liver
24	chr12:47581800-47594000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
25	chr12:47582000-47585400	Enhancers	Monocytes-CD14+_RO01746	blood
26	chr12:47582200-47582800	Enhancers	Muscle Satellite Cultured Cells	--
27	chr12:47582200-47583200	Enhancers	Brain Substantia Nigra	brain
28	chr12:47582200-47583800	Enhancers	NHDF-Ad	bronchial
29	chr12:47582200-47584200	Genic enhancers	Primary B cells from peripheral blood	blood
30	chr12:47582200-47584600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr12:47582200-47584600	Genic enhancers	Primary T cells from cord blood	blood
32	chr12:47582200-47584800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr12:47582200-47584800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr12:47582200-47584800	Enhancers	K562	blood
35	chr12:47582200-47585000	Enhancers	NH-A	brain
36	chr12:47582200-47585000	Enhancers	Osteobl	bone
37	chr12:47582200-47585400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
38	chr12:47582200-47585600	Enhancers	Primary monocytes fromperipheralblood	blood
39	chr12:47582400-47583200	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
40	chr12:47582400-47583200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr12:47582400-47583200	Enhancers	Aorta	Aorta
42	chr12:47582400-47583200	Enhancers	Pancreas	Pancrea
43	chr12:47582400-47583400	Enhancers	Rectal Smooth Muscle	rectum
44	chr12:47582400-47583600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
45	chr12:47582400-47583600	Enhancers	NHLF	lung
46	chr12:47582400-47583800	Enhancers	Fetal Lung	lung
47	chr12:47582400-47583800	Enhancers	Lung	lung
48	chr12:47582400-47583800	Enhancers	Rectal Mucosa Donor 31	rectum
49	chr12:47582400-47583800	Enhancers	Small Intestine	intestine
50	chr12:47582400-47583800	Enhancers	Hela-S3	cervix

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links