Variant report

Variant	rs6908296
Chromosome Location	chr6:149606057-149606058
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs1001965	0.80[ASN][1000 genomes]
rs13203475	0.87[CHD][hapmap]
rs1446561	0.84[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs1446562	0.84[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs4609053	0.80[ASN][1000 genomes]
rs4897102	0.80[ASN][1000 genomes]
rs4897104	0.80[ASN][1000 genomes]
rs4897105	0.80[ASN][1000 genomes]
rs4897106	0.80[ASN][1000 genomes]
rs4897109	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4897110	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6570957	0.80[ASN][1000 genomes]
rs6570961	0.80[ASN][1000 genomes]
rs6570962	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6903389	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6904464	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6906793	0.80[ASN][1000 genomes]
rs6907145	0.80[ASN][1000 genomes]
rs6907747	0.80[ASN][1000 genomes]
rs6908247	0.80[ASN][1000 genomes]
rs6912297	0.80[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6912567	0.84[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6912622	0.80[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6921428	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6928940	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6929714	0.80[ASN][1000 genomes]
rs7756413	0.80[ASN][1000 genomes]
rs9285518	0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs9322171	0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs9390669	0.80[ASN][1000 genomes]
rs9404024	0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9404025	0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs999120	0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]

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	nsv1024776	chr6:149398652-149654593	Weak transcription Active TSS Bivalent Enhancer Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs6908296	LRP11	cis	cerebellum	SCAN
rs6908296	MTHFD1L	cis	parietal	SCAN

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149605400-149609400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr6:149606000-149606800	Enhancers	GM12878-XiMat	blood
3	chr6:149606000-149607000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr6:149606000-149607000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr6:149606000-149607000	Enhancers	Placenta Amnion	Placenta Amnion

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