Variant report

Variant	rs2039417
Chromosome Location	chr9:9327309-9327310
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs11791244	0.85[CHB][hapmap]
rs11795233	1.00[CHB][hapmap]
rs1412870	0.85[CHB][hapmap]
rs1556520	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1930630	1.00[CHB][hapmap]
rs2184082	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2382001	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap]
rs2802282	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2802285	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs34153720	0.97[ASN][1000 genomes]
rs4143735	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4273903	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4342660	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4466451	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap]
rs4562383	0.85[CHB][hapmap];0.85[YRI][hapmap];0.82[ASN][1000 genomes]
rs4567093	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4592098	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs55892509	1.00[ASN][1000 genomes]
rs6477389	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6477390	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7019737	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap]
rs7036700	0.85[CHB][hapmap]
rs7039887	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap]
rs932997	1.00[CHB][hapmap]
rs9407416	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9408754	1.00[CHB][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv498066	chr9:8961722-9486652	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv892249	chr9:9026854-9377679	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv892252	chr9:9164473-9476425	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv1021440	chr9:9231961-9329870	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS	n/a	n/a	inside rSNPs	n/a
5	nsv892254	chr9:9253587-9348102	Enhancers Weak transcription Active TSS Flanking Active TSS	n/a	n/a	inside rSNPs	n/a
6	nsv824847	chr9:9255377-9378016	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv892255	chr9:9264932-9348102	Enhancers Weak transcription Active TSS Flanking Active TSS	n/a	n/a	inside rSNPs	n/a
8	nsv892256	chr9:9269284-9348102	Weak transcription Enhancers Active TSS Flanking Active TSS	n/a	n/a	inside rSNPs	n/a
9	nsv1025791	chr9:9294304-9626331	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
10	nsv892257	chr9:9304839-9349679	Enhancers Weak transcription Active TSS Flanking Active TSS	n/a	n/a	inside rSNPs	n/a
11	nsv892258	chr9:9304839-9455711	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
12	nsv613306	chr9:9311838-9338417	Enhancers Weak transcription Flanking Active TSS Active TSS	n/a	n/a	inside rSNPs	n/a
13	nsv892259	chr9:9311838-9348102	Enhancers Weak transcription Flanking Active TSS Active TSS	n/a	n/a	inside rSNPs	n/a
14	nsv818683	chr9:9326805-9330772	Weak transcription Enhancers	n/a	n/a	inside rSNPs	n/a
15	nsv520832	chr9:9326805-9364637	Enhancers Weak transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
16	nsv524993	chr9:9327159-9330772	Enhancers Weak transcription	n/a	n/a	inside rSNPs	n/a

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:9326000-9327600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr9:9327200-9331400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr9:9327200-9331600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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