Variant report

Variant	rs1011291
Chromosome Location	chr6:145315238-145315239
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:145313866..145316779-chr6:145321173..145322881,2	MCF-7	breast:

Extended variants
information (count: 50 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs1111809	0.90[EUR][1000 genomes]
rs11752326	0.86[EUR][1000 genomes]
rs12175554	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13200093	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13213543	0.93[EUR][1000 genomes]
rs13216473	1.00[CEU][hapmap];0.81[CHB][hapmap];0.88[MEX][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13216871	0.83[CEU][hapmap]
rs1338704	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs1338705	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs1572675	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17074550	0.93[EUR][1000 genomes]
rs2050719	0.91[EUR][1000 genomes]
rs2328623	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6932709	0.86[EUR][1000 genomes]
rs7742978	0.88[AMR][1000 genomes]
rs7768827	0.94[EUR][1000 genomes]
rs7769009	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs9322016	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9322017	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9373439	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9373440	0.90[AMR][1000 genomes]
rs9373441	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9376883	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9376884	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9376885	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9376886	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9376887	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9376888	0.88[ASN][1000 genomes]
rs9386096	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9386097	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9390263	0.93[EUR][1000 genomes]
rs9390268	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9390269	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9390270	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9390271	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9390272	0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9399523	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9399524	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9399525	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9399526	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9399527	0.88[ASN][1000 genomes]
rs9403645	0.93[EUR][1000 genomes]
rs9403649	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9403650	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9403652	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9403653	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9403655	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 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	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
3	nsv886742	chr6:145269757-145376903	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	2 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1011291	PLAGL1	cis	cerebellum	SCAN

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:145314600-145315400	Enhancers	Muscle Satellite Cultured Cells	--
2	chr6:145314600-145315400	Enhancers	HSMM	muscle
3	chr6:145314600-145315600	Enhancers	HUVEC	blood vessel
4	chr6:145314800-145315400	Enhancers	iPS-15b Cell Line	embryonic stem cell
5	chr6:145315000-145315400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr6:145315000-145315400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr6:145315000-145315400	Enhancers	NHDF-Ad	bronchial
8	chr6:145315000-145315400	Enhancers	NHLF	lung
9	chr6:145315200-145315600	Enhancers	Osteobl	bone

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links