Variant report

Variant	rs12577589
Chromosome Location	chr11:65901548-65901549
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:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:65894077..65895710-chr11:65900818..65903670,2	K562	blood:
2	chr11:65899561..65902107-chr11:65903112..65905957,2	MCF-7	breast:
3	chr11:65899578..65902503-chr11:65902811..65904748,2	K562	blood:
4	chr11:65833892..65843127-chr11:65900837..65907449,12	MCF-7	breast:
5	chr11:65900786..65903675-chr11:65962216..65963909,2	MCF-7	breast:
6	chr11:65834370..65841898-chr11:65897925..65905090,13	MCF-7	breast:
7	chr11:65812504..65815359-chr11:65900804..65903799,2	MCF-7	breast:
8	chr11:65837855..65838607-chr11:65901325..65902042,2	MCF-7	breast:
9	chr11:65827395..65828897-chr11:65899859..65901664,2	K562	blood:
10	chr11:65815794..65817513-chr11:65899681..65902337,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000087365	Chromatin interaction
ENSG00000175115	Chromatin interaction
ENSG00000255038	Chromatin interaction
ENSG00000175229	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs11227393	1.00[EUR][1000 genomes]
rs11227396	1.00[EUR][1000 genomes]
rs11227405	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs12575852	1.00[EUR][1000 genomes]
rs12576136	0.93[ASN][1000 genomes]
rs12576868	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2139968	0.95[ASN][1000 genomes]
rs2298446	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35188698	1.00[EUR][1000 genomes]
rs3814743	1.00[EUR][1000 genomes]
rs471203	0.97[ASN][1000 genomes]
rs4930169	1.00[EUR][1000 genomes]
rs58244723	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7943794	1.00[EUR][1000 genomes]
rs9787882	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][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	nsv948711	chr11:65692760-65949674	Genic enhancers Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	65 gene(s)	inside rSNPs	diseases
2	esv3335923	chr11:65741698-66175759	Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	117 gene(s)	inside rSNPs	diseases
3	esv1819302	chr11:65787660-66007018	Active TSS Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
4	esv3407551	chr11:65794503-66158322	Weak transcription Genic enhancers Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	103 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:65880400-65905000	Weak transcription	Fetal Stomach	stomach
2	chr11:65888400-65909800	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr11:65894200-65904000	Weak transcription	HepG2	liver
4	chr11:65894400-65904600	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr11:65894400-65909000	Weak transcription	K562	blood
6	chr11:65894600-65901800	Weak transcription	Hela-S3	cervix
7	chr11:65894800-65902600	Enhancers	Primary B cells from peripheral blood	blood
8	chr11:65894800-65912200	Weak transcription	Thymus	Thymus
9	chr11:65895000-65909200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr11:65895000-65913800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr11:65895000-65917600	Weak transcription	HSMM	muscle
12	chr11:65895200-65903000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr11:65895200-65903400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr11:65895200-65904600	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr11:65895200-65905000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
16	chr11:65895200-65905000	Weak transcription	Fetal Muscle Leg	muscle
17	chr11:65895200-65905000	Weak transcription	Right Ventricle	heart
18	chr11:65895200-65907600	Weak transcription	Pancreas	Pancrea
19	chr11:65895200-65912200	Weak transcription	Lung	lung
20	chr11:65895200-65913000	Weak transcription	Psoas Muscle	Psoas
21	chr11:65895400-65901800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr11:65895400-65904200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr11:65895400-65905000	Weak transcription	Monocytes-CD14+_RO01746	blood
24	chr11:65895400-65909400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr11:65895400-65910200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
26	chr11:65895600-65909400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr11:65895600-65909800	Weak transcription	NHEK	skin
28	chr11:65896200-65902000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
29	chr11:65896400-65901800	Weak transcription	HUES6 Cell Line	embryonic stem cell
30	chr11:65896600-65901800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
31	chr11:65896600-65907800	Weak transcription	HUES64 Cell Line	embryonic stem cell
32	chr11:65896600-65912800	Weak transcription	Cortex derived primary cultured neurospheres	brain
33	chr11:65897000-65903800	Enhancers	A549	lung
34	chr11:65897400-65901800	Weak transcription	HUES48 Cell Line	embryonic stem cell
35	chr11:65897800-65902000	Weak transcription	H1 Cell Line	embryonic stem cell
36	chr11:65898400-65901600	Enhancers	Primary B cells from cord blood	blood
37	chr11:65898400-65902200	Enhancers	Primary T cells from cord blood	blood
38	chr11:65898400-65913000	Weak transcription	Spleen	Spleen
39	chr11:65899000-65901800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
40	chr11:65899400-65901800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr11:65899400-65902200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr11:65899600-65902200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
43	chr11:65900000-65902800	Enhancers	GM12878-XiMat	blood
44	chr11:65900000-65907200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
45	chr11:65900000-65909800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
46	chr11:65900400-65902200	Enhancers	Fetal Brain Male	brain
47	chr11:65900800-65905000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
48	chr11:65901000-65902000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
49	chr11:65901000-65902000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
50	chr11:65901000-65902400	Enhancers	Fetal Brain Female	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links