Variant report

Variant	rs2754341
Chromosome Location	chr9:17572069-17572070
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10113874	0.86[CHB][hapmap]
rs10120378	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1022718	0.82[CHB][hapmap]
rs1028594	1.00[CEU][hapmap];0.83[CHB][hapmap];0.90[GIH][hapmap];0.86[MEX][hapmap];0.92[TSI][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10435770	0.81[EUR][1000 genomes]
rs10756891	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10810810	0.86[ASN][1000 genomes]
rs10810811	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10810812	0.87[CHB][hapmap]
rs12683178	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13294100	0.91[CEU][hapmap];0.83[CHB][hapmap];0.86[CHD][hapmap];0.86[JPT][hapmap];0.91[MEX][hapmap];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2254582	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2383031	0.83[CHB][hapmap];0.82[JPT][hapmap]
rs2593392	0.89[ASN][1000 genomes]
rs3758216	0.83[CHB][hapmap];0.86[JPT][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3758217	1.00[CEU][hapmap];0.87[CHB][hapmap];0.90[CHD][hapmap];0.97[GIH][hapmap];0.86[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3780254	0.87[CHB][hapmap];0.86[JPT][hapmap];0.87[ASN][1000 genomes]
rs3808775	0.83[CHB][hapmap]
rs4590535	0.82[CHB][hapmap]
rs4961575	0.87[CHB][hapmap]
rs7022382	0.87[ASN][1000 genomes]
rs7029346	0.87[CHB][hapmap];0.84[CHD][hapmap]
rs7030014	0.96[CEU][hapmap];0.87[CHB][hapmap];0.81[CHD][hapmap];0.90[MEX][hapmap];0.81[EUR][1000 genomes]
rs7047611	0.84[CHB][hapmap]
rs7047709	0.87[CHB][hapmap]
rs7859530	0.83[CHB][hapmap]
rs7867956	0.83[CHB][hapmap]
rs8181077	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv613693	chr9:17147191-17710407	Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
2	nsv471287	chr9:17165698-17708814	Weak transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
3	nsv466269	chr9:17165698-17710407	Weak transcription ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv892671	chr9:17378776-17610211	Bivalent Enhancer Enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
5	esv2422265	chr9:17396711-17598187	Flanking Active TSS Weak transcription Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
6	nsv517380	chr9:17564267-17633232	Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv466274	chr9:17564267-17633232	Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv613701	chr9:17564267-17633232	Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv892672	chr9:17564267-17634566	Active TSS Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:17571200-17572200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
2	chr9:17571200-17572600	Enhancers	ES-I3 Cell Line	embryonic stem cell
3	chr9:17571200-17572600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr9:17571200-17572600	Enhancers	HUES48 Cell Line	embryonic stem cell
5	chr9:17571400-17572600	Enhancers	iPS-18 Cell Line	embryonic stem cell
6	chr9:17571600-17572200	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
7	chr9:17571600-17572400	Enhancers	HUES64 Cell Line	embryonic stem cell
8	chr9:17571600-17572400	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
9	chr9:17572000-17572400	Enhancers	iPS-15b Cell Line	embryonic stem cell

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