Variant report

Variant	rs10278315
Chromosome Location	chr7:146965908-146965909
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 52 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10085456	0.89[JPT][hapmap]
rs10085764	1.00[JPT][hapmap]
rs1021008	0.91[JPT][hapmap]
rs10225100	1.00[JPT][hapmap]
rs10234386	1.00[JPT][hapmap]
rs10238730	1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs10242430	1.00[JPT][hapmap]
rs10248220	0.91[JPT][hapmap]
rs10251412	1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs10261539	0.81[JPT][hapmap]
rs10262107	1.00[JPT][hapmap]
rs10268597	1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs10276382	0.91[JPT][hapmap]
rs10279700	0.91[JPT][hapmap]
rs10808044	1.00[JPT][hapmap]
rs10952678	1.00[JPT][hapmap]
rs12531764	1.00[JPT][hapmap]
rs12534978	0.91[JPT][hapmap]
rs12538316	0.91[JPT][hapmap]
rs12703895	1.00[JPT][hapmap]
rs12703900	1.00[JPT][hapmap]
rs13235260	0.91[JPT][hapmap]
rs1383011	0.91[JPT][hapmap]
rs1390725	0.89[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs1404707	1.00[JPT][hapmap]
rs1496549	1.00[ASW][hapmap];0.84[CEU][hapmap];0.86[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];1.00[YRI][hapmap]
rs1525211	1.00[JPT][hapmap]
rs1525215	0.91[JPT][hapmap]
rs1525216	0.91[JPT][hapmap]
rs17170378	0.83[JPT][hapmap]
rs17170379	0.91[JPT][hapmap]
rs2132591	0.90[JPT][hapmap]
rs2620439	1.00[JPT][hapmap]
rs2692186	1.00[JPT][hapmap]
rs2692187	1.00[JPT][hapmap]
rs4637733	0.84[CHB][hapmap];1.00[JPT][hapmap]
rs4725708	0.84[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs4725709	0.91[JPT][hapmap]
rs4726833	0.89[CEU][hapmap];0.89[CHB][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.80[MKK][hapmap];0.97[TSI][hapmap]
rs4726834	0.89[CHB][hapmap];1.00[JPT][hapmap]
rs4726835	1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs6962971	0.91[JPT][hapmap]
rs6974852	0.91[JPT][hapmap]
rs7790788	1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[JPT][hapmap]
rs7810641	0.81[ASN][1000 genomes]
rs885610	0.82[JPT][hapmap]
rs9769600	0.86[CHD][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933033	chr7:146720301-147081560	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1033898	chr7:146721499-147081768	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
3	nsv931005	chr7:146730472-147381257	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
4	nsv889395	chr7:146848251-146969389	Enhancers Active TSS Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
5	nsv889396	chr7:146854133-147035067	Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10278315	TPK1	cis	parietal	SCAN
rs10278315	OR2A25	cis	cerebellum	SCAN
rs10278315	CUL1	cis	cerebellum	SCAN

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

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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