Variant report

Variant	rs3917792
Chromosome Location	chr1:169567832-169567833
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs1018828	1.00[CHD][hapmap];1.00[JPT][hapmap]
rs1569471	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16862374	1.00[JPT][hapmap]
rs16862375	1.00[JPT][hapmap]
rs17522707	1.00[CHD][hapmap];1.00[JPT][hapmap]
rs3917795	0.93[AFR][1000 genomes]
rs3917802	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3917803	0.93[AFR][1000 genomes]
rs3917806	0.93[AFR][1000 genomes]
rs3917810	1.00[JPT][hapmap]
rs3917811	0.89[ASW][hapmap];0.91[LWK][hapmap];0.87[MKK][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes]
rs3917818	1.00[CHD][hapmap];1.00[JPT][hapmap]
rs3917819	0.82[ASW][hapmap];1.00[CHB][hapmap];0.91[LWK][hapmap];0.87[MKK][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes]
rs3917820	0.89[ASW][hapmap];1.00[CHB][hapmap];0.91[LWK][hapmap];0.86[MKK][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes]
rs3917824	0.82[ASW][hapmap];1.00[CHB][hapmap];0.93[LWK][hapmap];0.87[MKK][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes]
rs3917836	1.00[JPT][hapmap]
rs3917840	1.00[JPT][hapmap]
rs3917848	1.00[JPT][hapmap]
rs3917851	1.00[JPT][hapmap]
rs3917853	1.00[CHD][hapmap];1.00[JPT][hapmap]
rs3917862	1.00[CHB][hapmap]
rs6132	0.95[AFR][1000 genomes]
rs6133	0.89[ASW][hapmap];1.00[CHB][hapmap];0.93[LWK][hapmap];0.87[MKK][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes]
rs6135	0.95[AFR][1000 genomes]
rs6664922	1.00[JPT][hapmap]
rs742125	0.93[AFR][1000 genomes]
rs742126	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv10418	chr1:169059628-169621268	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
2	nsv872538	chr1:169567516-169576207	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3917792	ATP1B1	cis	cerebellum	SCAN

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:169558800-169570000	Weak transcription	Primary T cells from cord blood	blood
2	chr1:169559200-169570400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr1:169564000-169570200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
4	chr1:169564400-169569800	Weak transcription	Primary T helper cells PMA-I stimulated	--
5	chr1:169565200-169570400	Weak transcription	GM12878-XiMat	blood
6	chr1:169565400-169581400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links