Variant report

Variant	rs2456531
Chromosome Location	chr15:53091896-53091897
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs1899752	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.91[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2120442	0.81[TSI][hapmap]
rs2165991	0.84[CEU][hapmap];0.84[JPT][hapmap];0.88[MEX][hapmap];0.96[TSI][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2243790	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.83[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs2244272	0.84[TSI][hapmap]
rs2440315	0.95[CEU][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.97[EUR][1000 genomes]
rs2440316	0.97[EUR][1000 genomes]
rs2440374	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2456506	0.94[EUR][1000 genomes]
rs2456523	0.91[EUR][1000 genomes]
rs2460	0.89[CEU][hapmap];0.93[EUR][1000 genomes]
rs28687152	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][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	nsv457142	chr15:53041887-53091896	Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a
4	nsv569427	chr15:53041887-53091896	Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a
5	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
6	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

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:53089600-53092400	Weak transcription	Pancreas	Pancrea
2	chr15:53090800-53092800	Bivalent Enhancer	HepG2	liver
3	chr15:53091400-53094200	Bivalent Enhancer	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr15:53091400-53095400	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
5	chr15:53091400-53095600	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
6	chr15:53091600-53092000	Bivalent Enhancer	HUES64 Cell Line	embryonic stem cell
7	chr15:53091600-53092400	Bivalent Enhancer	iPS-20b Cell Line	embryonic stem cell
8	chr15:53091600-53095400	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
9	chr15:53091800-53092000	Bivalent Enhancer	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr15:53091800-53092000	Flanking Active TSS	Liver	Liver
11	chr15:53091800-53092800	Bivalent Enhancer	H9 Cell Line	embryonic stem cell
12	chr15:53091800-53092800	Bivalent Enhancer	Duodenum Mucosa	Duodenum

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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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