Variant report

Variant	rs11229142
Chromosome Location	chr11:57587108-57587109
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	chr11:57585523..57588477-chr11:57826019..57828383,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000255146	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs10896648	0.87[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11229100	0.81[YRI][hapmap]
rs11229121	1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11827268	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11827406	1.00[AMR][1000 genomes]
rs12273110	1.00[AMR][1000 genomes]
rs12281687	0.91[AFR][1000 genomes];1.00[AMR][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	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	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
5	nsv1054205	chr11:57544264-58358509	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:57556400-57587800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr11:57568200-57588200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr11:57568600-57587200	Strong transcription	HUES6 Cell Line	embryonic stem cell
4	chr11:57568600-57589000	Strong transcription	NHLF	lung
5	chr11:57568800-57589000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr11:57568800-57589000	Strong transcription	NH-A	brain
7	chr11:57569000-57587200	Strong transcription	Rectal Mucosa Donor 31	rectum
8	chr11:57569000-57587400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr11:57569000-57587800	Weak transcription	Primary neutrophils fromperipheralblood	blood
10	chr11:57569000-57588800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr11:57569000-57589200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr11:57569200-57587200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr11:57569200-57589000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr11:57569400-57587200	Strong transcription	Osteobl	bone
15	chr11:57569400-57589000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr11:57569600-57589000	Strong transcription	HSMM	muscle
17	chr11:57570200-57587800	Strong transcription	HUVEC	blood vessel
18	chr11:57570200-57588000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
19	chr11:57570600-57587200	Strong transcription	HSMMtube	muscle
20	chr11:57572400-57588800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr11:57573600-57587200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr11:57576000-57590600	Weak transcription	Pancreatic Islets	Pancreatic Islet
23	chr11:57579600-57604400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
24	chr11:57580600-57588600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
25	chr11:57581000-57587400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr11:57584400-57588000	Weak transcription	Primary hematopoietic stem cells	blood
27	chr11:57584600-57591000	Weak transcription	Primary B cells from cord blood	blood
28	chr11:57584800-57587200	Strong transcription	NHDF-Ad	bronchial
29	chr11:57584800-57591400	Weak transcription	HMEC	breast
30	chr11:57584800-57591800	Weak transcription	A549	lung
31	chr11:57584800-57600600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
32	chr11:57585000-57587400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr11:57585000-57588200	Weak transcription	K562	blood
34	chr11:57585000-57589400	Weak transcription	Pancreas	Pancrea
35	chr11:57585000-57590400	Weak transcription	Primary B cells from peripheral blood	blood
36	chr11:57585000-57591400	Weak transcription	Lung	lung
37	chr11:57585000-57591400	Weak transcription	Ovary	ovary
38	chr11:57585200-57587200	Weak transcription	Skeletal Muscle Male	skeletal muscle
39	chr11:57585200-57587400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
40	chr11:57585200-57587400	Enhancers	Duodenum Mucosa	Duodenum
41	chr11:57585200-57588600	Weak transcription	Fetal Kidney	kidney
42	chr11:57585200-57591000	Weak transcription	Rectal Mucosa Donor 29	rectum
43	chr11:57585200-57591400	Weak transcription	Brain Angular Gyrus	brain
44	chr11:57585400-57587200	Weak transcription	Skeletal Muscle Female	skeletal muscle
45	chr11:57585400-57588200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr11:57585400-57588400	Weak transcription	Duodenum Smooth Muscle	Duodenum
47	chr11:57585400-57590200	Weak transcription	Stomach Smooth Muscle	stomach
48	chr11:57585600-57587200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr11:57585600-57587200	Weak transcription	Brain Cingulate Gyrus	brain
50	chr11:57585600-57587200	Weak transcription	Placenta Amnion	Placenta Amnion

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links