Variant report

Variant	rs11925923
Chromosome Location	chr3:79227552-79227553
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs11920038	0.87[TSI][hapmap]
rs11922032	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs11925014	1.00[CEU][hapmap];0.90[YRI][hapmap];0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11928467	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1378635	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1378636	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17016763	0.87[TSI][hapmap]
rs17016804	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs17016815	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs17016836	1.00[CEU][hapmap];0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17044180	0.87[TSI][hapmap]
rs17336055	1.00[GIH][hapmap];1.00[MEX][hapmap];0.82[TSI][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2124389	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2124390	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2168372	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs34673005	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4334606	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.86[LWK][hapmap];1.00[TSI][hapmap];0.90[YRI][hapmap];0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4519664	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4532095	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.86[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.90[YRI][hapmap];0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs5016999	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6766824	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6782878	0.87[TSI][hapmap]
rs6786720	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6791591	1.00[CEU][hapmap];0.90[YRI][hapmap];0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6804495	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6804803	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs716681	1.00[CEU][hapmap]
rs7611697	1.00[CEU][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7617560	1.00[CEU][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7618349	1.00[MEX][hapmap]
rs966144	1.00[CEU][hapmap];0.90[YRI][hapmap];0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834745	chr3:79055426-79227937	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:79219600-79227800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
2	chr3:79219600-79228000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr3:79225400-79227600	Weak transcription	NHDF-Ad	bronchial
4	chr3:79225400-79232800	Weak transcription	Fetal Stomach	stomach
5	chr3:79226400-79227600	Enhancers	Brain Germinal Matrix	brain
6	chr3:79226400-79228400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr3:79226400-79228400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr3:79226400-79229000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr3:79226400-79230200	Enhancers	Fetal Brain Male	brain
10	chr3:79226600-79228400	Enhancers	iPS-18 Cell Line	embryonic stem cell
11	chr3:79226600-79228600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
12	chr3:79226600-79229200	Enhancers	Cortex derived primary cultured neurospheres	brain
13	chr3:79226600-79229400	Enhancers	HUES64 Cell Line	embryonic stem cell
14	chr3:79226800-79227800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr3:79226800-79228800	Enhancers	HUES48 Cell Line	embryonic stem cell
16	chr3:79227200-79227600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr3:79227400-79228000	Flanking Active TSS	Fetal Brain Female	brain
18	chr3:79227400-79228400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr3:79227400-79228600	Enhancers	iPS-15b Cell Line	embryonic stem cell

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