Variant report

Variant	rs1454928
Chromosome Location	chr5:57225967-57225968
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 56 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs11740997	0.85[AMR][1000 genomes]
rs11741208	0.84[AMR][1000 genomes]
rs11742445	0.85[AMR][1000 genomes]
rs13160441	0.82[AMR][1000 genomes]
rs1349957	0.87[AMR][1000 genomes]
rs1352609	0.85[AMR][1000 genomes]
rs1352610	0.85[AMR][1000 genomes]
rs1387641	0.82[AMR][1000 genomes]
rs1454918	0.80[CEU][hapmap]
rs1454920	0.85[AMR][1000 genomes]
rs1454924	0.82[AMR][1000 genomes]
rs1454925	0.94[GIH][hapmap];0.91[MEX][hapmap];0.82[AMR][1000 genomes]
rs1454926	0.82[AMR][1000 genomes]
rs1489791	0.94[AMR][1000 genomes]
rs1489797	0.82[AMR][1000 genomes]
rs17749982	0.93[CEU][hapmap];0.84[CHD][hapmap];0.94[GIH][hapmap];0.91[MEX][hapmap];0.81[AMR][1000 genomes]
rs1826101	0.85[AMR][1000 genomes]
rs1826106	0.82[AMR][1000 genomes]
rs1844437	0.85[AMR][1000 genomes]
rs4699920	0.82[AMR][1000 genomes]
rs4700243	0.82[AMR][1000 genomes]
rs4700244	0.82[AMR][1000 genomes]
rs4700245	0.82[AMR][1000 genomes]
rs56976559	0.87[AMR][1000 genomes]
rs61636750	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62359093	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62359098	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62359143	0.95[ASN][1000 genomes]
rs62359144	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62359145	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62359146	0.94[AMR][1000 genomes]
rs62359147	0.80[AMR][1000 genomes]
rs62359148	0.94[AMR][1000 genomes]
rs62360185	0.80[AMR][1000 genomes]
rs62360186	0.86[AMR][1000 genomes]
rs62360187	0.85[AMR][1000 genomes]
rs62360200	0.85[AMR][1000 genomes]
rs62362089	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs62368373	0.85[AMR][1000 genomes]
rs62368400	0.84[AMR][1000 genomes]
rs62368401	0.81[AMR][1000 genomes]
rs62368402	0.84[AMR][1000 genomes]
rs62368407	0.85[AMR][1000 genomes]
rs62368408	0.85[AMR][1000 genomes]
rs62368409	0.85[AMR][1000 genomes]
rs62368412	0.85[AMR][1000 genomes]
rs62368414	0.85[AMR][1000 genomes]
rs62368415	0.84[AMR][1000 genomes]
rs6450458	0.85[AMR][1000 genomes]
rs6884729	0.85[AMR][1000 genomes]
rs6886096	0.85[AMR][1000 genomes]
rs7713227	0.85[AMR][1000 genomes]
rs7736576	0.85[AMR][1000 genomes]
rs984926	0.85[AMR][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	nsv525330	chr5:56931673-57320343	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	esv1792273	chr5:57214817-57320343	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1454928	MAP3K1	cis	parietal	SCAN

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:57225000-57228200	Enhancers	Brain Germinal Matrix	brain
2	chr5:57225000-57228800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr5:57225400-57226000	Enhancers	Fetal Stomach	stomach
4	chr5:57225600-57226000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links