Variant report

Variant	rs1390266
Chromosome Location	chr4:21378161-21378162
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:21372485..21375089-chr4:21376184..21378296,2	K562	blood:
2	chr4:21373360..21375651-chr4:21376032..21378469,2	MCF-7	breast:

Extended variants
information (count: 35 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs12499967	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13130239	0.80[JPT][hapmap]
rs13137692	0.82[JPT][hapmap]
rs1390258	1.00[CEU][hapmap]
rs1390262	1.00[CEU][hapmap]
rs1390264	1.00[CEU][hapmap];0.94[GIH][hapmap];0.87[MEX][hapmap];0.95[TSI][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1495519	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1495520	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1826738	1.00[CEU][hapmap]
rs1845694	1.00[CEU][hapmap]
rs1908552	1.00[CEU][hapmap];0.85[TSI][hapmap]
rs1948519	1.00[CEU][hapmap]
rs1994983	1.00[ASW][hapmap];0.92[CHD][hapmap];0.88[GIH][hapmap];0.89[JPT][hapmap];0.93[MEX][hapmap];0.83[MKK][hapmap];0.91[YRI][hapmap]
rs2322941	1.00[CEU][hapmap];0.80[GIH][hapmap];0.95[TSI][hapmap]
rs2322958	1.00[CEU][hapmap];0.97[GIH][hapmap];0.87[MEX][hapmap];0.95[TSI][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2322959	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2323001	0.81[CHD][hapmap];0.89[JPT][hapmap];0.82[AMR][1000 genomes]
rs4618301	1.00[CEU][hapmap]
rs4696976	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6820035	1.00[CHB][hapmap]
rs6854379	0.83[EUR][1000 genomes]
rs7655472	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7657161	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7660556	1.00[CEU][hapmap]
rs7675173	1.00[CEU][hapmap];0.97[GIH][hapmap];0.87[MEX][hapmap];0.95[TSI][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9996172	1.00[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013365	chr4:20834054-21609078	Bivalent/Poised TSS Flanking Active TSS Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1014062	chr4:21270358-21479027	Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases
3	nsv1005453	chr4:21295066-21454143	Enhancers Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv4267	chr4:21364827-21381632	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a
5	nsv1001768	chr4:21371991-21388664	Flanking Active TSS Enhancers Active TSS Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a
6	esv2760849	chr4:21372003-21386158	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
7	nsv1002862	chr4:21372271-21388664	Enhancers Flanking Active TSS Weak transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
8	esv3467568	chr4:21374054-21378852	Enhancers	Chromatin interactive region	n/a	inside rSNPs	n/a
9	esv3467569	chr4:21374054-21378852	Enhancers	Chromatin interactive region	n/a	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1390266	SOD3	cis	parietal	SCAN

Chromatin state (count:0 , 50 per page) page:

No data

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