Variant report

Variant	rs11790341
Chromosome Location	chr9:16637265-16637266
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs1003069	0.84[YRI][hapmap]
rs1029015	0.90[CHB][hapmap]
rs10756773	0.90[CHB][hapmap]
rs10810579	1.00[CHB][hapmap];0.82[JPT][hapmap];0.84[YRI][hapmap];0.84[ASN][1000 genomes]
rs10962519	0.88[CEU][hapmap];0.89[CHB][hapmap];0.81[JPT][hapmap];0.81[ASN][1000 genomes]
rs10962520	0.82[CEU][hapmap];0.90[CHB][hapmap];0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs13290470	0.89[CHB][hapmap];0.93[JPT][hapmap];0.86[ASN][1000 genomes]
rs1415471	0.89[CHB][hapmap]
rs1890074	0.95[CHB][hapmap]
rs2050617	1.00[CHB][hapmap]
rs2275256	0.89[CEU][hapmap];0.84[CHB][hapmap];0.81[AFR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4961727	0.90[CHB][hapmap];0.81[ASN][1000 genomes]
rs4961728	1.00[CHB][hapmap];0.88[JPT][hapmap];0.84[ASN][1000 genomes]
rs7019299	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.91[AFR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7033512	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.82[AFR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7034582	0.86[CEU][hapmap]
rs7043298	0.92[CEU][hapmap];0.95[CHB][hapmap];0.82[JPT][hapmap];0.95[YRI][hapmap];0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7046245	0.85[AFR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 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	nsv530934	chr9:16281246-16779432	Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv1032856	chr9:16465330-16773471	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS 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	11 gene(s)	inside rSNPs	diseases
4	nsv540073	chr9:16465330-16773471	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv430000	chr9:16603483-16671045	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	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

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:16629000-16640600	Weak transcription	HSMMtube	muscle
2	chr9:16629200-16642200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr9:16629400-16640400	Weak transcription	HSMM	muscle
4	chr9:16629600-16637400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr9:16629600-16638000	Weak transcription	Osteobl	bone
6	chr9:16629600-16653600	Weak transcription	HUVEC	blood vessel
7	chr9:16630000-16639600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr9:16630000-16642400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr9:16630400-16637400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr9:16630400-16640600	Weak transcription	Muscle Satellite Cultured Cells	--
11	chr9:16634000-16638200	Enhancers	Colon Smooth Muscle	Colon
12	chr9:16635200-16637400	Enhancers	Stomach Smooth Muscle	stomach
13	chr9:16636000-16641800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr9:16636000-16642000	Weak transcription	Duodenum Smooth Muscle	Duodenum
15	chr9:16636400-16642400	Weak transcription	NHDF-Ad	bronchial
16	chr9:16636400-16645800	Weak transcription	Ovary	ovary
17	chr9:16636600-16638200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr9:16636600-16638400	Enhancers	Dnd41	blood
19	chr9:16637000-16637400	Enhancers	NHEK	skin
20	chr9:16637000-16638000	Enhancers	HUES64 Cell Line	embryonic stem cell
21	chr9:16637000-16638200	Enhancers	HUES48 Cell Line	embryonic stem cell
22	chr9:16637000-16638200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr9:16637000-16638200	Enhancers	HMEC	breast
24	chr9:16637000-16638400	Enhancers	ES-I3 Cell Line	embryonic stem cell
25	chr9:16637000-16638400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr9:16637000-16639000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr9:16637200-16637800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr9:16637200-16637800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr9:16637200-16637800	Enhancers	Fetal Lung	lung
30	chr9:16637200-16637800	Enhancers	Fetal Stomach	stomach
31	chr9:16637200-16638000	Enhancers	Rectal Smooth Muscle	rectum
32	chr9:16637200-16638200	Enhancers	H1 Cell Line	embryonic stem cell
33	chr9:16637200-16638200	Enhancers	HUES6 Cell Line	embryonic stem cell
34	chr9:16637200-16638200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr9:16637200-16638200	Enhancers	iPS-20b Cell Line	embryonic stem cell
36	chr9:16637200-16638200	Enhancers	A549	lung
37	chr9:16637200-16638200	Enhancers	NH-A	brain
38	chr9:16637200-16638400	Enhancers	iPS-15b Cell Line	embryonic stem cell
39	chr9:16637200-16638400	Enhancers	iPS-18 Cell Line	embryonic stem cell
40	chr9:16637200-16638400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr9:16637200-16638400	Enhancers	NHLF	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links