Variant report

Variant	rs8025128
Chromosome Location	chr15:53093807-53093808
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1357	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs16965171	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16965179	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17543338	0.80[EUR][1000 genomes]
rs55781920	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61735385	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62023486	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs62023487	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs62023488	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs62023489	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62023490	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62023492	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62023493	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs8025155	0.93[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv471245	chr15:52607262-53187165	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	nsv1041421	chr15:52661342-53148286	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
3	nsv1046970	chr15:53065114-53142386	Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	n/a
4	nsv569428	chr15:53069874-53140045	Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Bivalent/Poised TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs8025128	ONECUT1	cis	cerebellum	SCAN

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:53091400-53094200	Bivalent Enhancer	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr15:53091400-53095400	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
3	chr15:53091400-53095600	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
4	chr15:53091600-53095400	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
5	chr15:53092000-53094200	Enhancers	Liver	Liver
6	chr15:53092200-53094200	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
7	chr15:53092400-53094200	Enhancers	Pancreas	Pancrea
8	chr15:53092800-53094000	Bivalent Enhancer	Fetal Muscle Trunk	muscle
9	chr15:53093600-53094000	Genic enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr15:53093800-53094000	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
11	chr15:53093800-53095200	Bivalent Enhancer	HUES64 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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