Variant report

Variant	rs12276435
Chromosome Location	chr11:85810631-85810632
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10128700	0.81[EUR][1000 genomes]
rs11234544	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11234548	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12270433	0.82[EUR][1000 genomes]
rs12271390	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12277986	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12281494	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12282655	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12284629	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12292364	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12294130	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs17159904	0.81[EUR][1000 genomes]
rs17745248	0.81[EUR][1000 genomes]
rs17745273	0.81[EUR][1000 genomes]
rs17745474	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17817956	0.84[EUR][1000 genomes]
rs2001241	0.87[EUR][1000 genomes]
rs4943937	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4944555	0.83[EUR][1000 genomes]
rs4944556	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs55791429	0.84[EUR][1000 genomes]
rs55815523	0.81[EUR][1000 genomes]
rs56187740	0.83[EUR][1000 genomes]
rs56207019	0.82[EUR][1000 genomes]
rs7128598	0.82[EUR][1000 genomes]
rs72950443	0.86[EUR][1000 genomes]
rs72950453	0.87[EUR][1000 genomes]
rs72950456	0.87[EUR][1000 genomes]
rs72959906	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs72959929	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs72965157	0.82[EUR][1000 genomes]
rs72965166	0.86[EUR][1000 genomes]
rs7943152	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1050948	chr11:85756325-85968665	Active TSS Genic enhancers Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
2	nsv541117	chr11:85756325-85968665	Enhancers Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12276435	PICALM	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:85803400-85810800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr11:85804400-85811000	Weak transcription	Osteobl	bone
3	chr11:85809600-85811000	Weak transcription	K562	blood
4	chr11:85810400-85811200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr11:85810400-85811200	Enhancers	Liver	Liver
6	chr11:85810400-85811400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr11:85810400-85811400	Enhancers	NHEK	skin

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Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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