Variant report

Variant	rs9403621
Chromosome Location	chr6:145204968-145204969
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 50 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs11969748	0.94[EUR][1000 genomes]
rs12174209	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13195905	0.85[YRI][hapmap]
rs13205266	1.00[ASW][hapmap]
rs13210332	0.91[EUR][1000 genomes]
rs13216473	1.00[ASW][hapmap]
rs35285375	0.82[EUR][1000 genomes]
rs35946718	0.82[EUR][1000 genomes]
rs4323328	0.92[EUR][1000 genomes]
rs4487599	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs57337295	0.93[EUR][1000 genomes]
rs6570656	0.94[EUR][1000 genomes]
rs6913165	0.94[EUR][1000 genomes]
rs71547172	0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7769065	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9285505	0.95[EUR][1000 genomes]
rs9322003	0.95[EUR][1000 genomes]
rs9322004	0.95[EUR][1000 genomes]
rs9322005	0.94[EUR][1000 genomes]
rs9373428	0.82[YRI][hapmap]
rs9373433	0.94[EUR][1000 genomes]
rs9373434	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9376858	0.85[YRI][hapmap]
rs9376869	0.80[AFR][1000 genomes];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9376874	0.94[EUR][1000 genomes]
rs9386089	0.94[EUR][1000 genomes]
rs9390243	0.97[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9390251	0.94[EUR][1000 genomes]
rs9390252	0.94[EUR][1000 genomes]
rs9390253	0.94[EUR][1000 genomes]
rs9390254	0.91[EUR][1000 genomes]
rs9390257	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9399514	0.80[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9399519	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9399520	0.94[EUR][1000 genomes]
rs9403600	0.85[YRI][hapmap]
rs9403610	0.87[YRI][hapmap]
rs9403627	0.95[EUR][1000 genomes]
rs9403628	0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9403629	0.94[EUR][1000 genomes]
rs9403631	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9403633	0.94[EUR][1000 genomes]
rs9403634	0.93[EUR][1000 genomes]
rs9497120	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9497121	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9497132	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1016747	chr6:144917411-145599874	Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv464070	chr6:145184504-145214952	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv604823	chr6:145184504-145214952	Weak transcription ZNF genes & repeats Enhancers Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
4	esv1850377	chr6:145199259-145319640	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9403621	PLAGL1	cis	cerebellum	SCAN
rs9403621	VTA1	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:145204800-145205400	Enhancers	Spleen	Spleen

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links