Variant report

Variant	rs7232069
Chromosome Location	chr18:40158358-40158359
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RIT2-5	chr18:40157399-40158567	ucscGeneNc_uc002lax_2

Extended variants
information (count: 43 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs12954824	0.90[ASN][1000 genomes]
rs17694970	0.86[ASN][1000 genomes]
rs237972	0.93[ASN][1000 genomes]
rs346238	0.93[ASN][1000 genomes]
rs3924664	0.87[EUR][1000 genomes]
rs4243262	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4243264	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4312390	1.00[ASN][1000 genomes]
rs4503884	1.00[ASN][1000 genomes]
rs4514768	0.90[EUR][1000 genomes]
rs4533372	1.00[ASN][1000 genomes]
rs4575617	1.00[ASN][1000 genomes]
rs4629063	0.90[EUR][1000 genomes]
rs4633808	0.84[EUR][1000 genomes]
rs55755544	0.86[ASN][1000 genomes]
rs55843226	0.86[ASN][1000 genomes]
rs55967412	0.86[ASN][1000 genomes]
rs56128741	0.86[ASN][1000 genomes]
rs7228101	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7229728	0.82[EUR][1000 genomes]
rs7230640	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7231626	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7238529	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72893563	0.93[ASN][1000 genomes]
rs72893564	0.93[ASN][1000 genomes]
rs72893569	0.93[ASN][1000 genomes]
rs72893572	0.93[ASN][1000 genomes]
rs72893580	1.00[ASN][1000 genomes]
rs72893582	1.00[ASN][1000 genomes]
rs72893596	1.00[ASN][1000 genomes]
rs72895334	0.90[ASN][1000 genomes]
rs72895337	0.86[ASN][1000 genomes]
rs72895341	0.86[ASN][1000 genomes]
rs72895352	0.86[ASN][1000 genomes]
rs72907077	0.93[ASN][1000 genomes]
rs9951191	0.82[EUR][1000 genomes]
rs9956876	0.85[EUR][1000 genomes]
rs9959682	0.84[EUR][1000 genomes]
rs9964460	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9964813	0.84[EUR][1000 genomes]
rs9967058	0.83[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	esv3447158	chr18:40045478-40320720	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	esv2754458	chr18:40070202-40164902	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7232069	SYT4	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:40156000-40158400	Weak transcription	Muscle Satellite Cultured Cells	--
2	chr18:40156600-40158400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr18:40158200-40159400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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