Variant report

Variant	rs2456538
Chromosome Location	chr15:53038877-53038878
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1648351	0.90[AMR][1000 genomes]
rs1648354	0.84[AMR][1000 genomes]
rs1899743	0.82[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs2440326	0.87[EUR][1000 genomes]
rs2440330	0.86[EUR][1000 genomes]
rs2440332	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2440333	0.86[EUR][1000 genomes]
rs2440336	0.90[EUR][1000 genomes]
rs2456535	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2456537	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3886527	0.86[AMR][1000 genomes]
rs7169654	0.87[AMR][1000 genomes]
rs935191	0.83[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	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	nsv833006	chr15:52825954-53040462	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
4	nsv1049144	chr15:52995637-53039179	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
5	nsv1049619	chr15:52995637-53041887	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
6	nsv569426	chr15:53014003-53046210	Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer Genic enhancers Active TSS	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:53035600-53039000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr15:53035600-53043400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr15:53037400-53039000	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
4	chr15:53037600-53040000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr15:53038000-53039800	Enhancers	H1 Cell Line	embryonic stem cell
6	chr15:53038000-53040000	Enhancers	HepG2	liver
7	chr15:53038000-53043400	Weak transcription	Pancreas	Pancrea
8	chr15:53038200-53039200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
9	chr15:53038400-53039400	Enhancers	HUES64 Cell Line	embryonic stem cell
10	chr15:53038400-53039600	Enhancers	HUES48 Cell Line	embryonic stem cell
11	chr15:53038600-53039200	Enhancers	iPS-15b Cell Line	embryonic stem cell
12	chr15:53038600-53039400	Enhancers	ES-I3 Cell Line	embryonic stem cell
13	chr15:53038800-53039200	Enhancers	H9 Cell Line	embryonic stem cell
14	chr15:53038800-53039400	Enhancers	iPS-18 Cell Line	embryonic stem cell
15	chr15:53038800-53039800	Enhancers	HUES6 Cell Line	embryonic stem cell

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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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