Variant report

Variant	rs17409911
Chromosome Location	chr1:57458590-57458591
allele	C/T
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:16)

rs_ID	r²[population]
rs1342435	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1411013	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1411014	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1418473	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1418475	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1774888	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1774905	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1774910	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2251154	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs515493	0.82[CEU][hapmap];0.92[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.82[MEX][hapmap];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs526259	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs630417	0.92[CHB][hapmap];0.85[CHD][hapmap];0.88[JPT][hapmap];0.93[ASN][1000 genomes]
rs661586	0.91[CEU][hapmap];0.92[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.82[MEX][hapmap];0.92[TSI][hapmap];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs689342	0.91[CEU][hapmap];0.90[CHB][hapmap];0.88[JPT][hapmap];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72641113	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs947655	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869295	chr1:56894955-57656562	Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv428752	chr1:57455083-57605082	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:57454400-57459200	Weak transcription	Liver	Liver
2	chr1:57457400-57462400	Weak transcription	Fetal Intestine Large	intestine
3	chr1:57457800-57480400	Weak transcription	Fetal Intestine Small	intestine
4	chr1:57458200-57458600	Enhancers	Fetal Kidney	kidney
5	chr1:57458200-57458800	Active TSS	Skeletal Muscle Female	skeletal muscle
6	chr1:57458200-57458800	Active TSS	Stomach Smooth Muscle	stomach
7	chr1:57458400-57458800	Active TSS	Skeletal Muscle Male	skeletal muscle
8	chr1:57458400-57459000	Enhancers	Fetal Brain Female	brain
9	chr1:57458400-57460400	Enhancers	HUES6 Cell Line	embryonic stem cell
10	chr1:57458400-57466600	Weak transcription	Psoas Muscle	Psoas

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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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