Variant report

Variant	rs6836304
Chromosome Location	chr4:100995816-100995817
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 78 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs1044044	0.84[JPT][hapmap]
rs10516458	0.81[CEU][hapmap];0.84[JPT][hapmap]
rs10516461	0.83[EUR][1000 genomes]
rs11097681	0.81[CEU][hapmap];0.83[JPT][hapmap]
rs11097687	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11723286	0.84[JPT][hapmap]
rs11723477	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11732182	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11735694	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11736218	0.81[CEU][hapmap];0.84[JPT][hapmap]
rs11736719	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11736750	0.81[CEU][hapmap];0.84[JPT][hapmap]
rs11931053	0.84[JPT][hapmap]
rs11932783	0.81[CEU][hapmap];0.84[JPT][hapmap]
rs11932845	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11935767	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11937848	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11937985	0.81[CEU][hapmap];0.84[JPT][hapmap]
rs11939538	0.84[JPT][hapmap]
rs11940617	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11941520	0.84[JPT][hapmap]
rs11942532	1.00[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11944405	0.81[CEU][hapmap];0.84[JPT][hapmap]
rs11944693	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11945303	0.81[CEU][hapmap];0.84[JPT][hapmap]
rs11947412	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17029662	0.84[JPT][hapmap]
rs17029673	0.81[CEU][hapmap];0.84[JPT][hapmap]
rs2070738	0.84[JPT][hapmap]
rs2081626	0.81[CEU][hapmap];0.84[JPT][hapmap]
rs2276939	0.81[CEU][hapmap];0.84[JPT][hapmap]
rs36109329	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4343735	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4492010	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs55705206	0.94[AFR][1000 genomes]
rs56159765	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs56311063	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs57253200	0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs57315614	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs58385517	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs60524451	0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs61351569	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62306122	0.94[AFR][1000 genomes]
rs6532837	0.82[JPT][hapmap]
rs6532841	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6532842	0.92[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs66686535	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs66775689	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs66903712	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs67560461	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs67594720	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs67973788	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6813794	0.80[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6816635	0.84[JPT][hapmap]
rs6825579	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6830286	0.92[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs6832726	0.81[CEU][hapmap];0.84[JPT][hapmap]
rs6834448	0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6834813	0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6837281	0.89[AFR][1000 genomes]
rs6839278	0.95[CEU][hapmap];0.83[JPT][hapmap];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6842492	0.88[ASN][1000 genomes]
rs6842840	0.84[JPT][hapmap]
rs6845556	0.84[JPT][hapmap]
rs6858035	0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7340772	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7340886	0.93[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs7660479	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7662195	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7665301	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7666156	0.84[JPT][hapmap]
rs7668076	0.93[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs7676597	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7687287	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9942267	0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9942269	0.93[EUR][1000 genomes];0.87[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	nsv427689	chr4:100931741-101216531	Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv830018	chr4:100977238-101027920	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs6836304	MAPKSP1	cis	cerebellum	SCAN
rs6836304	MAPKSP1	cis	parietal	SCAN

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:100993200-100996400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr4:100993400-100996600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr4:100995800-100997000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links