Variant report

Variant	rs28623562
Chromosome Location	chr4:54602592-54602593
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:54601577..54603651-chr4:54607437..54610085,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-GSX2-2	chr4:54602090-54603323	ENSG00000249341.1

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10007326	0.86[EUR][1000 genomes]
rs10028338	0.97[EUR][1000 genomes]
rs10031863	0.94[EUR][1000 genomes]
rs10049838	0.88[EUR][1000 genomes]
rs10517293	1.00[EUR][1000 genomes]
rs1551879	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1551881	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17676844	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17676926	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1903826	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28385358	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs28408784	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28416484	0.86[EUR][1000 genomes]
rs28429195	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28439455	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28459143	0.92[AFR][1000 genomes]
rs28491549	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28523988	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28589490	0.92[AFR][1000 genomes]
rs28592900	0.86[EUR][1000 genomes]
rs28610185	0.88[EUR][1000 genomes]
rs28631447	0.84[EUR][1000 genomes]
rs28694496	0.88[EUR][1000 genomes]
rs28716961	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55697814	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55821336	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55980777	0.86[EUR][1000 genomes]
rs61561463	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73250990	0.94[EUR][1000 genomes]
rs73250992	0.94[EUR][1000 genomes]
rs73250993	0.94[EUR][1000 genomes]
rs73250995	0.88[EUR][1000 genomes]
rs73250998	0.88[EUR][1000 genomes]
rs73250999	0.88[EUR][1000 genomes]
rs73251000	0.86[EUR][1000 genomes]
rs73817107	0.88[EUR][1000 genomes]
rs9997817	0.89[AMR][1000 genomes];1.00[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	esv15357	chr4:54591392-54603209	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
2	nsv879015	chr4:54596466-54665559	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:54598400-54602600	Enhancers	Primary monocytes fromperipheralblood	blood
2	chr4:54600000-54603400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr4:54601200-54603400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr4:54601200-54603400	Enhancers	NHDF-Ad	bronchial
5	chr4:54601800-54602600	Enhancers	Monocytes-CD14+_RO01746	blood
6	chr4:54601800-54603200	Enhancers	NHLF	lung
7	chr4:54601800-54603400	Enhancers	Muscle Satellite Cultured Cells	--

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