Variant report

Variant	rs6785086
Chromosome Location	chr3:54690203-54690204
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs56041093	0.82[AFR][1000 genomes]
rs57670447	0.82[AFR][1000 genomes]
rs59167690	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67558528	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6800366	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs68045728	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72870635	0.89[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014595	chr3:53944473-54846754	Enhancers Bivalent Enhancer Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv428084	chr3:54404258-54742756	Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv834700	chr3:54637374-54803896	Weak transcription Enhancers Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv525644	chr3:54653316-54709987	Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 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	chr3:54677400-54690800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
2	chr3:54681200-54694800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
3	chr3:54681400-54693400	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr3:54681600-54693400	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr3:54681800-54693200	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr3:54683600-54693600	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr3:54684200-54694600	Weak transcription	Stomach Smooth Muscle	stomach
8	chr3:54685200-54704000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr3:54686200-54694600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr3:54687800-54692200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr3:54688200-54691200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr3:54688400-54693400	Weak transcription	HUES6 Cell Line	embryonic stem cell
13	chr3:54689000-54693600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr3:54689200-54697200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
15	chr3:54690200-54691000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell

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dbSNP/dbVar ID: rs12345 /nsv7879
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