Variant report

Variant	rs11788101
Chromosome Location	chr9:16828961-16828962
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10810638	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10962623	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10962626	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10962628	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10962629	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10962630	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11789463	0.87[AMR][1000 genomes]
rs34790477	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs36067353	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs3936215	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3936216	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7024447	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7863196	0.82[AMR][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	nsv530933	chr9:16251206-16830845	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1024799	chr9:16631890-17431827	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
3	nsv892650	chr9:16696187-16950860	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv892651	chr9:16816755-16869240	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:80 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:16825800-16829000	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr9:16828000-16829400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr9:16828200-16829000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr9:16828200-16831000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr9:16828400-16829000	Enhancers	iPS-15b Cell Line	embryonic stem cell
6	chr9:16828400-16829200	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr9:16828400-16829200	Active TSS	Colon Smooth Muscle	Colon
8	chr9:16828400-16829200	Enhancers	Placenta Amnion	Placenta Amnion
9	chr9:16828400-16829200	Active TSS	Rectal Smooth Muscle	rectum
10	chr9:16828400-16829200	Active TSS	Skeletal Muscle Female	skeletal muscle
11	chr9:16828400-16829400	Enhancers	H1 Cell Line	embryonic stem cell
12	chr9:16828400-16829400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr9:16828400-16829400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr9:16828400-16829400	Flanking Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr9:16828400-16829400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
16	chr9:16828400-16829400	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr9:16828400-16829400	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr9:16828400-16829400	Active TSS	Aorta	Aorta
19	chr9:16828400-16829400	Flanking Active TSS	Fetal Adrenal Gland	Adrenal Gland
20	chr9:16828400-16829400	Active TSS	Fetal Muscle Trunk	muscle
21	chr9:16828400-16829400	Active TSS	Psoas Muscle	Psoas
22	chr9:16828400-16829400	Active TSS	Right Atrium	heart
23	chr9:16828400-16829400	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
24	chr9:16828400-16829400	Flanking Active TSS	HSMM	muscle
25	chr9:16828400-16829400	Flanking Active TSS	NH-A	brain
26	chr9:16828400-16829400	Flanking Active TSS	NHLF	lung
27	chr9:16828400-16829600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr9:16828400-16829800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr9:16828400-16830800	Enhancers	HUES48 Cell Line	embryonic stem cell
30	chr9:16828400-16831000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
31	chr9:16828600-16829000	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
32	chr9:16828600-16829000	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
33	chr9:16828600-16829000	Enhancers	iPS-20b Cell Line	embryonic stem cell
34	chr9:16828600-16829000	Active TSS	Breast Myoepithelial Primary Cells	Breast
35	chr9:16828600-16829000	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr9:16828600-16829000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
37	chr9:16828600-16829000	Active TSS	Pancreas	Pancrea
38	chr9:16828600-16829000	Active TSS	NHDF-Ad	bronchial
39	chr9:16828600-16829200	Bivalent/Poised TSS	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr9:16828600-16829200	Active TSS	Brain Hippocampus Middle	brain
41	chr9:16828600-16829200	Active TSS	Brain Substantia Nigra	brain
42	chr9:16828600-16829200	Active TSS	Esophagus	oesophagus
43	chr9:16828600-16829200	Active TSS	Fetal Intestine Large	intestine
44	chr9:16828600-16829200	Active TSS	Fetal Intestine Small	intestine
45	chr9:16828600-16829200	Bivalent/Poised TSS	Left Ventricle	heart
46	chr9:16828600-16829200	Active TSS	Right Ventricle	heart
47	chr9:16828600-16829200	Flanking Active TSS	HUVEC	blood vessel
48	chr9:16828600-16829400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
49	chr9:16828600-16829400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
50	chr9:16828600-16829400	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain

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