Variant report

Variant	rs4908988
Chromosome Location	chr3:17887988-17887989
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:17882812..17884441-chr3:17886131..17888293,2	K562	blood:
2	chr3:17886187..17888501-chr3:17910971..17912809,2	K562	blood:
3	chr3:17872264..17874205-chr3:17887353..17889740,2	MCF-7	breast:

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs1004307	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10510478	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs11128838	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11128849	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11128850	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11128857	0.85[ASN][1000 genomes]
rs11128871	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11925066	0.85[CHB][hapmap]
rs11927436	0.85[CHB][hapmap]
rs11927654	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12495352	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13062642	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs13071301	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13076724	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1430896	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1430904	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1469558	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17044053	0.85[CHB][hapmap]
rs17044072	0.85[CHB][hapmap]
rs17200916	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17200979	0.89[CEU][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs17273111	0.92[CEU][hapmap];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2033373	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2033374	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2033377	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2033378	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2033379	0.89[CEU][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2337387	0.88[CEU][hapmap];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs28796017	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4243834	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4260468	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs4312680	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4330281	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4422341	0.85[ASN][1000 genomes]
rs4450852	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4611850	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4908942	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4908965	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4908967	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4908976	0.85[ASN][1000 genomes]
rs4908978	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4908979	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4908981	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4908982	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4908984	0.86[AMR][1000 genomes]
rs4908985	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4908986	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6577597	0.88[CEU][hapmap];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6577598	0.97[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6771673	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6780932	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6784025	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6787380	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6794859	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6802932	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6804677	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6807020	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7627732	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7632834	0.97[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7633898	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7642860	0.85[CEU][hapmap]
rs7651998	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs8179891	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs919562	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9862290	0.97[AFR][1000 genomes];0.99[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	nsv999594	chr3:17690416-17982318	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:17882800-17888800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr3:17886400-17888000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr3:17886800-17888800	Enhancers	Fetal Stomach	stomach
4	chr3:17887000-17888000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr3:17887600-17888000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr3:17887600-17888400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr3:17887600-17888600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr3:17887800-17888200	Enhancers	HUES6 Cell Line	embryonic stem cell
9	chr3:17887800-17888200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr3:17887800-17888600	Enhancers	Muscle Satellite Cultured Cells	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links