Variant report

Variant	rs4928161
Chromosome Location	chr3:99934895-99934896
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1060452	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11719857	0.92[ASN][1000 genomes]
rs11918291	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11920015	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11923373	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11924911	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12486660	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12486865	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12490043	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12490140	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12492610	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12493917	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17335566	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs17335614	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2171205	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs277657	0.88[CEU][hapmap];0.82[EUR][1000 genomes]
rs4928116	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4928117	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4928120	0.90[JPT][hapmap]
rs4928166	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4928170	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs55950446	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs56181320	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs56311459	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs57271189	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62281663	0.85[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7619048	0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv817478	chr3:99474086-99955548	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv916476	chr3:99478229-100124625	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
3	nsv1003924	chr3:99933762-100112690	Strong transcription Weak transcription Enhancers Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:99929600-99935200	Weak transcription	Aorta	Aorta
2	chr3:99929800-99935200	Weak transcription	HSMMtube	muscle
3	chr3:99929800-99935400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr3:99930000-99935200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr3:99930600-99935000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr3:99930600-99935200	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr3:99930600-99937400	Weak transcription	Psoas Muscle	Psoas
8	chr3:99930800-99935200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr3:99931200-99938000	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr3:99933000-99935200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr3:99933200-99935200	Weak transcription	NH-A	brain
12	chr3:99934800-99936000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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