Variant report

Variant	rs28673893
Chromosome Location	chr5:58238555-58238556
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10042327	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10045533	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10059024	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10060863	0.86[AMR][1000 genomes]
rs10076213	0.86[AMR][1000 genomes]
rs13354132	0.86[AMR][1000 genomes]
rs13360939	0.81[AMR][1000 genomes]
rs17290147	0.86[AMR][1000 genomes]
rs34791515	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3816996	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs57337307	0.86[AMR][1000 genomes]
rs58705088	0.86[AMR][1000 genomes]
rs59942820	0.81[AMR][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	esv2830363	chr5:57893949-58555491	Weak transcription Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv830312	chr5:58191579-58382226	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:58234600-58239200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr5:58234800-58238800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr5:58236600-58239400	Weak transcription	Muscle Satellite Cultured Cells	--
4	chr5:58237000-58239200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr5:58237000-58239600	Weak transcription	Osteobl	bone
6	chr5:58237000-58239800	Weak transcription	HSMM	muscle
7	chr5:58237400-58239400	Weak transcription	HSMMtube	muscle
8	chr5:58237400-58239600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr5:58237600-58241800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr5:58238200-58238600	Weak transcription	Pancreas	Pancrea

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

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