Variant report

Variant	rs28572642
Chromosome Location	chr4:27051754-27051755
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10007132	0.84[ASN][1000 genomes]
rs10019691	0.82[ASN][1000 genomes]
rs1012550	0.82[ASN][1000 genomes]
rs10939147	0.82[ASN][1000 genomes]
rs12331378	0.84[ASN][1000 genomes]
rs13140015	0.80[ASN][1000 genomes]
rs16878671	0.82[ASN][1000 genomes]
rs2871256	0.82[ASN][1000 genomes]
rs4692136	0.83[ASN][1000 genomes]
rs6833149	0.83[ASN][1000 genomes]
rs6855865	0.82[ASN][1000 genomes]
rs6856381	0.83[ASN][1000 genomes]
rs9998009	0.82[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	nsv470021	chr4:26721578-27067027	Active TSS Strong transcription Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv461312	chr4:26844674-27078376	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv593872	chr4:26844674-27078376	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs28572642	STIM2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:27050600-27054000	Weak transcription	Right Atrium	heart
2	chr4:27051200-27051800	Enhancers	Brain Germinal Matrix	brain
3	chr4:27051400-27062800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr4:27051600-27058600	Weak transcription	H9 Cell Line	embryonic stem cell

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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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