Variant report

Variant	rs2889113
Chromosome Location	chr3:144538795-144538796
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs12630923	0.86[ASN][1000 genomes]
rs12637876	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13092397	0.80[ASN][1000 genomes]
rs1358450	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs1518242	0.80[ASN][1000 genomes]
rs1533561	0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1533562	0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1607353	0.80[ASN][1000 genomes]
rs1607354	0.80[ASN][1000 genomes]
rs1914634	0.84[ASN][1000 genomes]
rs1914638	0.86[ASN][1000 genomes]
rs3938170	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4420918	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4485763	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6782506	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6804493	0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7611778	0.86[ASN][1000 genomes]
rs7644560	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7646183	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9289682	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9822039	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9842453	0.86[ASN][1000 genomes]
rs9844072	0.86[ASN][1000 genomes]
rs9857472	0.86[ASN][1000 genomes]
rs9857704	0.98[ASN][1000 genomes]
rs9862354	0.84[ASN][1000 genomes]
rs9873006	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9882434	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv591928	chr3:144050897-144822081	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	esv3357831	chr3:144433846-144790831	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	esv3405013	chr3:144433866-144790801	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv829746	chr3:144451478-144618224	Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv829747	chr3:144463330-144654092	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv1005754	chr3:144529346-144984363	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2889113	TM4SF1	cis	parietal	SCAN

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:144535800-144539600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr3:144535800-144539600	Weak transcription	NHDF-Ad	bronchial
3	chr3:144538400-144539000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr3:144538400-144539200	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr3:144538400-144539200	Enhancers	Adipose Nuclei	Adipose
6	chr3:144538600-144539000	Enhancers	HUES48 Cell Line	embryonic stem cell
7	chr3:144538600-144539000	Enhancers	HUES6 Cell Line	embryonic stem cell
8	chr3:144538600-144539000	Enhancers	iPS-15b Cell Line	embryonic stem cell
9	chr3:144538600-144539000	Enhancers	Fetal Lung	lung
10	chr3:144538600-144539000	Enhancers	Skeletal Muscle Female	skeletal muscle

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