Variant report

Variant	rs497367
Chromosome Location	chr1:57860886-57860887
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs12094275	1.00[EUR][1000 genomes]
rs169169	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17115834	1.00[EUR][1000 genomes]
rs17115844	1.00[EUR][1000 genomes]
rs269041	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs269043	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs269047	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs269053	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs269055	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs269056	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3844040	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs475078	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs486804	1.00[EUR][1000 genomes]
rs523282	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs534715	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs537659	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs539257	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs566802	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57855581	1.00[EUR][1000 genomes]
rs58121843	1.00[EUR][1000 genomes]
rs60825740	1.00[EUR][1000 genomes]
rs72909285	1.00[EUR][1000 genomes]
rs72909297	1.00[EUR][1000 genomes]
rs72911219	1.00[EUR][1000 genomes]
rs7548078	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv817216	chr1:57801783-58130775	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv954	chr1:57823140-57865799	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv1001771	chr1:57837089-58068175	Bivalent/Poised TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:57855200-57862000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr1:57856400-57863200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr1:57858000-57868600	Weak transcription	Fetal Brain Male	brain
4	chr1:57860200-57865400	Weak transcription	HepG2	liver
5	chr1:57860200-57865600	Weak transcription	Fetal Intestine Small	intestine
6	chr1:57860400-57863200	Weak transcription	HUES64 Cell Line	embryonic stem cell
7	chr1:57860400-57863400	Weak transcription	HUES6 Cell Line	embryonic stem cell
8	chr1:57860400-57863800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr1:57860400-57874600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr1:57860600-57861000	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr1:57860600-57863400	Weak transcription	iPS-20b 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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