Variant report

Variant	rs3889350
Chromosome Location	chr18:24536610-24536611
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs12326934	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16943055	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs16943181	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs28433105	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3889349	0.89[AFR][1000 genomes];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs55976171	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs56403102	0.85[EUR][1000 genomes]
rs57465464	0.86[AMR][1000 genomes]
rs58569620	1.00[EUR][1000 genomes]
rs60167332	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61089873	0.88[EUR][1000 genomes]
rs61998173	0.88[EUR][1000 genomes]
rs6508460	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6508461	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6508463	0.88[EUR][1000 genomes]
rs67822335	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7227120	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7232288	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7237212	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7238255	0.88[EUR][1000 genomes]
rs7243196	0.86[AMR][1000 genomes]
rs72880575	0.85[EUR][1000 genomes]
rs8085829	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap];0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8086337	0.80[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8088793	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs8091201	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9807634	0.86[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	nsv833600	chr18:24473894-24681019	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv909472	chr18:24479960-24614192	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv1067103	chr18:24524011-24760469	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv543668	chr18:24524011-24760469	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:24508600-24536800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr18:24532200-24536800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr18:24536400-24537800	Enhancers	Cortex derived primary cultured neurospheres	brain
4	chr18:24536600-24536800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr18:24536600-24536800	Enhancers	HUES48 Cell Line	embryonic stem cell
6	chr18:24536600-24536800	Enhancers	iPS-18 Cell Line	embryonic stem cell
7	chr18:24536600-24537000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr18:24536600-24537200	Enhancers	iPS-20b Cell Line	embryonic stem cell
9	chr18:24536600-24537200	Enhancers	Primary hematopoietic stem cells	blood
10	chr18:24536600-24537400	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr18:24536600-24537600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr18:24536600-24537600	Enhancers	Pancreatic Islets	Pancreatic Islet
13	chr18:24536600-24538600	Enhancers	HUES64 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links