Variant report

Variant	rs11940351
Chromosome Location	chr4:87578460-87578461
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:87574443..87576554-chr4:87578304..87580063,2	MCF-7	breast:

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs11936622	0.81[AFR][1000 genomes]
rs11937511	0.90[AFR][1000 genomes]
rs11937815	0.90[AFR][1000 genomes]
rs11938746	0.90[AFR][1000 genomes]
rs11940149	0.81[AFR][1000 genomes]
rs6821849	0.81[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv594786	chr4:87076360-87609320	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
2	nsv594787	chr4:87221827-87888667	Enhancers Weak transcription Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
3	nsv1012836	chr4:87279206-87643558	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
4	esv2757071	chr4:87417291-87689533	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
5	esv2759264	chr4:87417291-87689533	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
6	nsv879522	chr4:87473776-87644842	Weak transcription ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv822635	chr4:87479576-87622176	Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Strong transcription Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	nsv879523	chr4:87517609-87594472	Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
9	nsv879524	chr4:87517609-87603929	Strong transcription Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
10	esv2755470	chr4:87536515-87613212	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:87566600-87578600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr4:87571600-87578600	Weak transcription	Esophagus	oesophagus
3	chr4:87571600-87596000	Weak transcription	Pancreas	Pancrea
4	chr4:87574200-87579400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr4:87574600-87583600	Weak transcription	Ovary	ovary
6	chr4:87574600-87594000	Weak transcription	Fetal Kidney	kidney
7	chr4:87574600-87604400	Weak transcription	Brain Substantia Nigra	brain
8	chr4:87574600-87644400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr4:87574800-87578600	Weak transcription	HUES64 Cell Line	embryonic stem cell
10	chr4:87574800-87582000	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr4:87575200-87578600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr4:87575200-87580800	Weak transcription	Fetal Lung	lung
13	chr4:87575600-87582600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr4:87575800-87581600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
15	chr4:87576000-87582200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr4:87576200-87593400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr4:87576400-87581200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
18	chr4:87576400-87586000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr4:87576600-87582200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr4:87576800-87582400	Weak transcription	A549	lung
21	chr4:87576800-87587800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr4:87577200-87580600	Weak transcription	Fetal Intestine Large	intestine
23	chr4:87578000-87579600	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr4:87578000-87579600	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr4:87578000-87580200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr4:87578000-87580400	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr4:87578200-87578800	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
28	chr4:87578200-87579800	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr4:87578400-87578600	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
30	chr4:87578400-87578600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr4:87578400-87579400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr4:87578400-87579400	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr4:87578400-87579600	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links