Variant report

Variant	rs12408179
Chromosome Location	chr1:169708127-169708128
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]
rs10157398	0.88[JPT][hapmap]
rs10489178	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs10800476	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12063022	0.88[ASN][1000 genomes]
rs12127655	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2076059	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs3917389	0.91[ASN][1000 genomes]
rs3917419	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs6427213	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6427218	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6660124	0.96[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6693963	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7526645	0.88[ASN][1000 genomes]
rs7531675	0.91[ASN][1000 genomes]
rs7543618	0.93[ASN][1000 genomes]
rs7549412	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[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	nsv532586	chr1:169593222-169713184	Weak transcription Transcr. at gene 5' and 3' Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	esv3451367	chr1:169630075-169976964	Strong transcription Flanking Active TSS Genic enhancers Enhancers Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:169706400-169710200	Weak transcription	Liver	Liver
2	chr1:169707000-169710200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr1:169707000-169710200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr1:169707000-169710400	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr1:169707200-169710400	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr1:169707400-169710400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
7	chr1:169707400-169710600	Weak transcription	HUES6 Cell Line	embryonic stem cell
8	chr1:169707800-169710400	Enhancers	HUVEC	blood vessel

Quick Search:

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

what's new

Quick links