Variant report

Variant	rs6894395
Chromosome Location	chr5:111809558-111809559
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:111809237..111810846-chr5:111815691..111818419,2	K562	blood:

Extended variants
information (count: 154 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:153)

rs_ID	r²[population]
rs10039730	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10041380	0.82[ASN][1000 genomes]
rs10044406	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10050630	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10051512	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10056040	0.82[ASN][1000 genomes]
rs10059675	0.82[ASN][1000 genomes]
rs10060534	0.82[ASN][1000 genomes]
rs10060831	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10060962	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10061025	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10061207	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10062045	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10068969	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10068974	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10069134	0.88[EUR][1000 genomes]
rs10069313	0.82[ASN][1000 genomes]
rs10069608	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10069773	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10071058	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10071862	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10071986	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10072705	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10076627	0.82[ASN][1000 genomes]
rs10077058	0.82[ASN][1000 genomes]
rs10077309	0.82[ASN][1000 genomes]
rs10077774	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10079307	1.00[JPT][hapmap]
rs1019473	0.88[EUR][1000 genomes]
rs10477480	0.82[ASN][1000 genomes]
rs10478081	1.00[JPT][hapmap]
rs10478082	1.00[JPT][hapmap]
rs10478083	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10478084	1.00[JPT][hapmap]
rs10478086	0.82[ASN][1000 genomes]
rs10515444	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs12187850	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12189127	0.84[AFR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12189152	0.81[AFR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12189437	1.00[CEU][hapmap];0.89[TSI][hapmap]
rs1318178	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs13354202	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs13354699	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs1345685	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1524423	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs1524424	0.82[ASN][1000 genomes]
rs1554624	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17134381	1.00[JPT][hapmap]
rs17134382	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17134423	1.00[JPT][hapmap]
rs17134426	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs17134429	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs17134454	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs17134478	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs17134479	0.82[ASN][1000 genomes]
rs17134503	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17134505	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17347283	1.00[CEU][hapmap]
rs2067096	0.88[EUR][1000 genomes]
rs2416285	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs28497526	0.82[ASN][1000 genomes]
rs28626415	0.82[ASN][1000 genomes]
rs28716575	0.82[ASN][1000 genomes]
rs28806604	0.82[ASN][1000 genomes]
rs28831993	0.82[ASN][1000 genomes]
rs28836584	0.82[ASN][1000 genomes]
rs28851506	0.82[ASN][1000 genomes]
rs28887818	0.82[ASN][1000 genomes]
rs2900063	0.82[ASN][1000 genomes]
rs388383	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap]
rs3985058	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs4292487	0.86[EUR][1000 genomes]
rs4441914	0.82[ASN][1000 genomes]
rs448714	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap]
rs55814486	0.86[EUR][1000 genomes]
rs6594590	1.00[JPT][hapmap]
rs6594594	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs6594596	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs6594597	0.82[ASN][1000 genomes]
rs6594599	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67638655	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6860402	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs6861534	0.82[ASN][1000 genomes]
rs6863610	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs6865127	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6865715	1.00[JPT][hapmap]
rs6867914	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6873453	0.82[ASN][1000 genomes]
rs6875349	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6878092	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs6878158	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6879906	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs6882162	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6883585	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs6883800	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs6884339	1.00[JPT][hapmap]
rs6890476	1.00[JPT][hapmap]
rs6891512	1.00[JPT][hapmap]
rs6893840	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6894365	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6895299	0.82[ASN][1000 genomes]
rs721054	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs721055	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs73214254	0.82[ASN][1000 genomes]
rs73214256	0.82[ASN][1000 genomes]
rs73214261	0.82[ASN][1000 genomes]
rs73214264	0.82[ASN][1000 genomes]
rs73214270	0.82[ASN][1000 genomes]
rs73214272	0.82[ASN][1000 genomes]
rs73214274	0.82[ASN][1000 genomes]
rs73216591	0.82[ASN][1000 genomes]
rs73218321	0.82[ASN][1000 genomes]
rs73218339	0.82[ASN][1000 genomes]
rs73218340	0.82[ASN][1000 genomes]
rs73218343	0.82[ASN][1000 genomes]
rs73218347	0.82[ASN][1000 genomes]
rs73218348	0.82[ASN][1000 genomes]
rs73218349	0.82[ASN][1000 genomes]
rs73220307	0.82[ASN][1000 genomes]
rs7702830	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7702999	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs7705094	0.82[ASN][1000 genomes]
rs7706551	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs7706737	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs7707028	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs7709879	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs7709963	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs7710041	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs7710063	0.82[ASN][1000 genomes]
rs7710507	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs7711662	0.82[ASN][1000 genomes]
rs7714258	1.00[JPT][hapmap]
rs7714450	0.82[ASN][1000 genomes]
rs7716246	1.00[JPT][hapmap]
rs7716394	1.00[JPT][hapmap]
rs7725728	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs7725742	0.82[ASN][1000 genomes]
rs7730739	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs7733415	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs7736305	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs7737622	1.00[JPT][hapmap]
rs821739	1.00[JPT][hapmap]
rs821746	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9326853	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs9654518	0.82[ASN][1000 genomes]
rs985873	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs986797	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs9885137	1.00[JPT][hapmap]
rs9885182	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs9885209	0.82[ASN][1000 genomes]
rs9885211	0.82[ASN][1000 genomes]
rs9885390	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs999243	1.00[JPT][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv599368	chr5:111399885-112032675	Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs6894395	PJA2	cis	parietal	SCAN
rs6894395	EPB41L4A	cis	parietal	SCAN
rs6894395	SNORA13	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:111807600-111809800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr5:111807600-111810000	Enhancers	HUVEC	blood vessel
3	chr5:111808400-111810800	Weak transcription	Fetal Kidney	kidney

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links