Variant report

Variant	rs58972964
Chromosome Location	chr15:53407604-53407605
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs16965376	1.00[EUR][1000 genomes]
rs16965677	1.00[EUR][1000 genomes]
rs57717458	1.00[EUR][1000 genomes]
rs60615330	1.00[EUR][1000 genomes]
rs60799783	1.00[EUR][1000 genomes]
rs60841107	1.00[EUR][1000 genomes]
rs73402090	1.00[EUR][1000 genomes]
rs73403616	1.00[EUR][1000 genomes]
rs73403621	1.00[EUR][1000 genomes]
rs73403630	1.00[EUR][1000 genomes]
rs73403632	1.00[EUR][1000 genomes]
rs73403635	1.00[EUR][1000 genomes]
rs73403645	1.00[EUR][1000 genomes]
rs73403662	1.00[EUR][1000 genomes]
rs73403677	1.00[EUR][1000 genomes]
rs73403683	1.00[EUR][1000 genomes]
rs73403684	1.00[EUR][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	nsv833007	chr15:53264564-53453525	Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv904221	chr15:53279378-53434365	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	esv3343986	chr15:53284440-53571936	Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1037630	chr15:53324645-53708925	Weak transcription Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv1050535	chr15:53352572-53472957	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv1039762	chr15:53354285-53414479	Enhancers Flanking Active TSS Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:53406800-53408600	Enhancers	HepG2	liver
2	chr15:53407000-53408000	Active TSS	Rectal Smooth Muscle	rectum
3	chr15:53407200-53408400	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr15:53407400-53407800	Active TSS	Duodenum Mucosa	Duodenum
5	chr15:53407400-53407800	Active TSS	Duodenum Smooth Muscle	Duodenum
6	chr15:53407400-53408000	Active TSS	Rectal Mucosa Donor 29	rectum
7	chr15:53407600-53408400	Flanking Active TSS	Rectal Mucosa Donor 31	rectum

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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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