Variant report

Variant	rs6788806
Chromosome Location	chr3:142917923-142917924
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:142917669..142921522-chr3:142924910..142927664,3	K562	blood:
2	chr3:142917101..142918800-chr3:142923414..142925582,2	K562	blood:
3	chr3:142908825..142914026-chr3:142914356..142919906,7	K562	blood:

Extended variants
information (count: 63 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10935485	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11715203	0.81[ASN][1000 genomes]
rs169808	0.81[ASN][1000 genomes]
rs186077	0.81[ASN][1000 genomes]
rs2165520	0.81[ASN][1000 genomes]
rs294465	0.81[ASN][1000 genomes]
rs294469	0.81[ASN][1000 genomes]
rs294470	0.88[ASN][1000 genomes]
rs294471	0.81[ASN][1000 genomes]
rs294472	0.81[ASN][1000 genomes]
rs294473	0.81[ASN][1000 genomes]
rs4371486	0.83[CHB][hapmap];0.90[CHD][hapmap];0.83[JPT][hapmap];0.81[ASN][1000 genomes]
rs4683461	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.93[TSI][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4839588	0.81[ASN][1000 genomes]
rs4839591	0.81[ASN][1000 genomes]
rs4839616	0.81[ASN][1000 genomes]
rs4839617	0.81[ASN][1000 genomes]
rs4839618	0.81[ASN][1000 genomes]
rs4839619	0.81[ASN][1000 genomes]
rs4839621	0.81[ASN][1000 genomes]
rs4839625	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4839629	0.81[ASN][1000 genomes]
rs4839656	0.81[ASN][1000 genomes]
rs54520	0.83[CHB][hapmap];0.83[JPT][hapmap];0.81[ASN][1000 genomes]
rs6414352	0.81[ASN][1000 genomes]
rs6440149	0.81[ASN][1000 genomes]
rs6440150	0.81[ASN][1000 genomes]
rs6440151	0.81[ASN][1000 genomes]
rs6440152	0.81[ASN][1000 genomes]
rs6440153	0.81[ASN][1000 genomes]
rs6765181	0.81[ASN][1000 genomes]
rs6767762	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6776634	0.81[ASN][1000 genomes]
rs6777882	0.81[ASN][1000 genomes]
rs6778330	0.81[ASN][1000 genomes]
rs6781821	0.81[ASN][1000 genomes]
rs6781909	0.81[ASN][1000 genomes]
rs6785002	0.81[ASN][1000 genomes]
rs6786129	0.81[ASN][1000 genomes]
rs6795908	0.81[ASN][1000 genomes]
rs6796353	0.81[ASN][1000 genomes]
rs6803862	0.81[ASN][1000 genomes]
rs7611317	0.81[ASN][1000 genomes]
rs7632649	0.81[ASN][1000 genomes]
rs834906	0.81[ASN][1000 genomes]
rs834907	0.81[ASN][1000 genomes]
rs834908	0.81[ASN][1000 genomes]
rs834909	0.81[ASN][1000 genomes]
rs834910	0.81[ASN][1000 genomes]
rs9289656	0.81[ASN][1000 genomes]
rs9809153	0.81[ASN][1000 genomes]
rs9821086	0.83[CHB][hapmap];0.83[JPT][hapmap]
rs990738	0.81[ASN][1000 genomes]
rs991419	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2757893	chr3:142720230-142962932	Enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	esv2759183	chr3:142720230-142964373	Strong transcription Weak transcription Enhancers Bivalent Enhancer Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
3	nsv949288	chr3:142793323-143585882	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
4	nsv508250	chr3:142842454-142943722	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	esv34280	chr3:142887460-142962075	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv818171	chr3:142894411-142960273	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv1009573	chr3:142896048-142959777	Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	esv2757014	chr3:142905661-142964373	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
9	nsv10333	chr3:142913781-142919105	Enhancers Weak transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6788806	PLS1	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:142917200-142918800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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