Variant report

Variant	rs11945220
Chromosome Location	chr4:87564916-87564917
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs11929807	1.00[AMR][1000 genomes]
rs11933110	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs11936622	1.00[AMR][1000 genomes]
rs11937511	1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11937815	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11938746	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11940149	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs11944714	1.00[AMR][1000 genomes]
rs61391256	1.00[AMR][1000 genomes]
rs61757791	1.00[AMR][1000 genomes]
rs6821849	1.00[AMR][1000 genomes]
rs72868898	1.00[AMR][1000 genomes]
rs72870603	1.00[AMR][1000 genomes]
rs72870604	1.00[AMR][1000 genomes]
rs72870617	1.00[AMR][1000 genomes]
rs7698902	1.00[AMR][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:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:87541200-87571200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
2	chr4:87542800-87566400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
3	chr4:87544400-87571200	Weak transcription	Pancreas	Pancrea
4	chr4:87546200-87569400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr4:87554600-87567000	Weak transcription	Osteobl	bone
6	chr4:87554600-87567400	Weak transcription	Esophagus	oesophagus
7	chr4:87554800-87566000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr4:87555800-87567600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr4:87555800-87567800	Weak transcription	Fetal Intestine Large	intestine
10	chr4:87556200-87570800	Weak transcription	Fetal Stomach	stomach
11	chr4:87557400-87566000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr4:87557600-87565400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr4:87557600-87567800	Weak transcription	Brain Cingulate Gyrus	brain
14	chr4:87557600-87569200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr4:87557600-87569600	Weak transcription	Brain Hippocampus Middle	brain
16	chr4:87557600-87571000	Weak transcription	H1 Cell Line	embryonic stem cell
17	chr4:87557600-87571200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
18	chr4:87557800-87565200	Weak transcription	NHEK	skin
19	chr4:87557800-87565400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr4:87557800-87565600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr4:87557800-87566000	Weak transcription	NHDF-Ad	bronchial
22	chr4:87557800-87567800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr4:87557800-87568200	Weak transcription	Fetal Kidney	kidney
24	chr4:87557800-87568400	Weak transcription	Brain Substantia Nigra	brain
25	chr4:87557800-87568800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr4:87557800-87569000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr4:87557800-87569400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr4:87557800-87569400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr4:87557800-87569400	Weak transcription	Cortex derived primary cultured neurospheres	brain
30	chr4:87557800-87569600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr4:87557800-87569600	Weak transcription	Fetal Lung	lung
32	chr4:87557800-87570200	Weak transcription	Ovary	ovary
33	chr4:87558000-87568600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
34	chr4:87561000-87570000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr4:87561600-87566800	Weak transcription	HMEC	breast
36	chr4:87561800-87569600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
37	chr4:87562000-87566200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr4:87562400-87566400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
39	chr4:87563000-87568800	Weak transcription	HUES64 Cell Line	embryonic stem cell
40	chr4:87563000-87571000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
41	chr4:87563800-87568600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr4:87563800-87569800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr4:87564400-87570800	Weak transcription	Fetal Intestine Small	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links