Variant report

Variant	rs12279926
Chromosome Location	chr11:57442395-57442396
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:57441735..57443267-chr11:57446473..57449316,2	K562	blood:
2	chr11:57441886..57442704-chr20:57465864..57466448,2	Hela-S3	cervix:
3	chr11:57433015..57436358-chr11:57440099..57444661,8	MCF-7	breast:
4	chr11:57440494..57443306-chr11:57507739..57511429,4	K562	blood:
5	chr11:57440686..57443520-chr11:57549214..57550745,2	K562	blood:

Variant related genes	Relation type
ENSG00000087460	Chromatin interaction
ENSG00000211450	Chromatin interaction
ENSG00000254732	Chromatin interaction
ENSG00000156599	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs10896635	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11229090	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17152018	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044030	chr11:57073395-58035564	Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	136 gene(s)	inside rSNPs	diseases
2	nsv541047	chr11:57073395-58035564	Active TSS Enhancers Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	136 gene(s)	inside rSNPs	diseases
3	nsv530621	chr11:57139699-57703639	Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Weak transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	109 gene(s)	inside rSNPs	diseases
4	nsv832163	chr11:57299354-57481050	Strong transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
5	nsv1040913	chr11:57315006-57696122	Active TSS Flanking Active TSS Weak transcription Enhancers Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	93 gene(s)	inside rSNPs	diseases
6	nsv832164	chr11:57407617-57578825	Enhancers Strong transcription Genic enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
7	nsv508633	chr11:57419585-57560045	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:57436600-57479000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr11:57437400-57449800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr11:57437400-57458000	Weak transcription	Fetal Heart	heart
4	chr11:57437800-57447400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr11:57438000-57442400	Weak transcription	Small Intestine	intestine
6	chr11:57438400-57445400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr11:57438400-57445800	Strong transcription	Fetal Intestine Large	intestine
8	chr11:57438600-57443200	Strong transcription	NHLF	lung
9	chr11:57438600-57443600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
10	chr11:57438600-57444000	Strong transcription	Duodenum Mucosa	Duodenum
11	chr11:57438600-57464600	Strong transcription	Fetal Brain Female	brain
12	chr11:57438600-57469400	Strong transcription	Rectal Mucosa Donor 29	rectum
13	chr11:57438600-57478200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr11:57438800-57444000	Genic enhancers	Primary T helper naive cells from peripheral blood	blood
15	chr11:57438800-57448000	Strong transcription	Primary B cells from peripheral blood	blood
16	chr11:57438800-57449600	Genic enhancers	Primary T helper naive cells fromperipheralblood	blood
17	chr11:57438800-57464600	Strong transcription	Monocytes-CD14+_RO01746	blood
18	chr11:57438800-57469600	Strong transcription	Primary monocytes fromperipheralblood	blood
19	chr11:57438800-57473800	Strong transcription	Fetal Muscle Trunk	muscle
20	chr11:57439000-57444200	Strong transcription	Primary hematopoietic stem cells	blood
21	chr11:57439000-57445800	Strong transcription	Rectal Mucosa Donor 31	rectum
22	chr11:57439000-57447600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr11:57439000-57469400	Strong transcription	Cortex derived primary cultured neurospheres	brain
24	chr11:57439000-57473400	Strong transcription	Fetal Thymus	thymus
25	chr11:57439000-57477400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr11:57439200-57442600	Strong transcription	Fetal Kidney	kidney
27	chr11:57439200-57443600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr11:57439200-57443800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr11:57439200-57444000	Strong transcription	NH-A	brain
30	chr11:57439200-57445600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr11:57439200-57445600	Genic enhancers	Primary T helper cells fromperipheralblood	blood
32	chr11:57439200-57445800	Strong transcription	Left Ventricle	heart
33	chr11:57439200-57446400	Strong transcription	Adipose Nuclei	Adipose
34	chr11:57439200-57447000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr11:57439200-57451400	Strong transcription	Primary B cells from cord blood	blood
36	chr11:57439200-57464600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
37	chr11:57439200-57469600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
38	chr11:57439400-57443800	Strong transcription	A549	lung
39	chr11:57439400-57443800	Strong transcription	HUVEC	blood vessel
40	chr11:57439400-57444200	Genic enhancers	Primary T cells from cord blood	blood
41	chr11:57439400-57444200	Genic enhancers	Primary T killer memory cells from peripheral blood	blood
42	chr11:57439400-57444200	Strong transcription	Hela-S3	cervix
43	chr11:57439400-57444400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
44	chr11:57439400-57445600	Genic enhancers	Primary T helper cells PMA-I stimulated	--
45	chr11:57439400-57445600	Strong transcription	Osteobl	bone
46	chr11:57439400-57447000	Strong transcription	HSMM	muscle
47	chr11:57439400-57457400	Strong transcription	Thymus	Thymus
48	chr11:57439400-57473000	Strong transcription	Placenta	Placenta
49	chr11:57439600-57442400	Strong transcription	HUES6 Cell Line	embryonic stem cell
50	chr11:57439600-57442600	Strong transcription	Fetal Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links