Variant report

Variant	rs10817726
Chromosome Location	chr9:117974717-117974718
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs10119915	0.90[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10120799	1.00[JPT][hapmap];0.92[AFR][1000 genomes]
rs10122188	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10125919	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10817709	0.82[YRI][hapmap]
rs10817710	0.85[YRI][hapmap]
rs10817711	0.82[YRI][hapmap]
rs10817719	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs10817720	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs10817724	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10817727	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10982516	0.82[YRI][hapmap]
rs10982518	0.85[YRI][hapmap]
rs10982519	0.85[YRI][hapmap]
rs10982560	1.00[JPT][hapmap]
rs10982563	1.00[JPT][hapmap]
rs10982564	1.00[JPT][hapmap]
rs10982565	1.00[JPT][hapmap]
rs10982568	1.00[JPT][hapmap]
rs10982569	1.00[JPT][hapmap]
rs10982570	1.00[JPT][hapmap]
rs10982571	1.00[JPT][hapmap]
rs10982578	0.92[AFR][1000 genomes]
rs10982583	0.92[AFR][1000 genomes]
rs10982585	1.00[JPT][hapmap]
rs10982589	1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs10982590	1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs10982591	1.00[JPT][hapmap]
rs10982597	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10982600	0.92[AFR][1000 genomes]
rs10982607	0.93[ASN][1000 genomes]
rs10982610	0.91[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs10982613	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10982615	0.81[CEU][hapmap];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12001569	1.00[YRI][hapmap]
rs12235159	0.82[YRI][hapmap]
rs12235377	0.90[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs12237691	1.00[JPT][hapmap]
rs12339665	0.96[AFR][1000 genomes]
rs12340324	0.82[YRI][hapmap]
rs12350544	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12350563	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13288003	0.81[CHB][hapmap]
rs1335334	1.00[YRI][hapmap]
rs1414149	0.91[CHB][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16932289	1.00[JPT][hapmap]
rs16932349	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs16932380	0.81[CEU][hapmap];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs34459511	0.96[AFR][1000 genomes]
rs35263530	0.96[AFR][1000 genomes]
rs4607691	0.92[AFR][1000 genomes]
rs60715510	0.92[AFR][1000 genomes]
rs6478136	1.00[JPT][hapmap]
rs6478141	1.00[JPT][hapmap]
rs7027235	1.00[JPT][hapmap]
rs71505533	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7357687	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs7847093	1.00[JPT][hapmap]
rs7851019	1.00[JPT][hapmap]
rs7851086	1.00[JPT][hapmap]
rs7851110	1.00[JPT][hapmap]
rs7851481	1.00[JPT][hapmap]
rs7859387	1.00[JPT][hapmap]
rs7862558	1.00[JPT][hapmap]
rs7864609	1.00[JPT][hapmap]
rs9886855	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.85[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	nsv615250	chr9:117768021-118012841	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv916912	chr9:117770039-118014140	Flanking Active TSS Enhancers Strong transcription Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv831697	chr9:117860416-118023927	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv893769	chr9:117936903-117985886	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:53 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:117960800-117975800	Weak transcription	Fetal Kidney	kidney
2	chr9:117963000-117977200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr9:117967800-117979400	Weak transcription	Aorta	Aorta
4	chr9:117969000-117975400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr9:117969000-117976800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr9:117969200-117975000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr9:117969400-117976000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr9:117972400-117976400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr9:117972600-117975600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr9:117972600-117975600	Weak transcription	NHEK	skin
11	chr9:117973000-117975600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr9:117973000-117976600	Enhancers	NHDF-Ad	bronchial
13	chr9:117973200-117975200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr9:117973600-117974800	Enhancers	NHLF	lung
15	chr9:117973600-117975200	Enhancers	Muscle Satellite Cultured Cells	--
16	chr9:117973600-117975400	Enhancers	HSMMtube	muscle
17	chr9:117973600-117975800	Enhancers	Primary B cells from peripheral blood	blood
18	chr9:117973600-117976600	Enhancers	Fetal Lung	lung
19	chr9:117973600-117977000	Enhancers	Fetal Stomach	stomach
20	chr9:117973800-117974800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr9:117973800-117974800	Enhancers	Fetal Muscle Leg	muscle
22	chr9:117973800-117975000	Enhancers	Duodenum Smooth Muscle	Duodenum
23	chr9:117973800-117976600	Enhancers	Adipose Nuclei	Adipose
24	chr9:117973800-117976800	Enhancers	NH-A	brain
25	chr9:117973800-117977000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr9:117973800-117977000	Enhancers	Colon Smooth Muscle	Colon
27	chr9:117973800-117977000	Enhancers	Rectal Smooth Muscle	rectum
28	chr9:117973800-117977800	Enhancers	Cortex derived primary cultured neurospheres	brain
29	chr9:117974000-117974800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr9:117974000-117974800	Weak transcription	Brain Hippocampus Middle	brain
31	chr9:117974000-117975400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr9:117974000-117975800	Weak transcription	Stomach Smooth Muscle	stomach
33	chr9:117974000-117976400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr9:117974200-117974800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr9:117974200-117974800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr9:117974200-117974800	Enhancers	Duodenum Mucosa	Duodenum
37	chr9:117974200-117975000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
38	chr9:117974200-117975000	Enhancers	GM12878-XiMat	blood
39	chr9:117974200-117975200	Enhancers	Osteobl	bone
40	chr9:117974200-117976000	Weak transcription	Liver	Liver
41	chr9:117974200-117976000	Weak transcription	Skeletal Muscle Female	skeletal muscle
42	chr9:117974200-117976200	Weak transcription	Placenta	Placenta
43	chr9:117974200-117976600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr9:117974200-117976600	Enhancers	HSMM	muscle
45	chr9:117974200-117977000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr9:117974200-117982400	Weak transcription	Brain Germinal Matrix	brain
47	chr9:117974400-117974800	Weak transcription	HUES6 Cell Line	embryonic stem cell
48	chr9:117974400-117975400	Weak transcription	HMEC	breast
49	chr9:117974400-117975800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
50	chr9:117974400-117976000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links