Variant report

Variant	rs9427664
Chromosome Location	chr1:196961073-196961074
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:196950312..196952870-chr1:196960936..196962928,2	MCF-7	breast:

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10484502	0.93[ASN][1000 genomes]
rs10737685	0.93[ASN][1000 genomes]
rs10754209	0.89[ASN][1000 genomes]
rs11589158	0.88[ASN][1000 genomes]
rs1170879	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12723250	0.86[ASN][1000 genomes]
rs12755054	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1332661	0.88[ASN][1000 genomes]
rs1332667	0.95[ASN][1000 genomes]
rs1412635	0.90[ASN][1000 genomes]
rs1611982	0.90[ASN][1000 genomes]
rs1615413	0.88[ASN][1000 genomes]
rs1750311	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17514309	0.81[ASN][1000 genomes]
rs1759016	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17662710	0.84[ASN][1000 genomes]
rs2225565	0.86[ASN][1000 genomes]
rs2298882	0.88[ASN][1000 genomes]
rs2336596	0.95[ASN][1000 genomes]
rs35593284	0.84[ASN][1000 genomes]
rs3748555	0.86[ASN][1000 genomes]
rs3748556	0.86[ASN][1000 genomes]
rs3748557	0.86[ASN][1000 genomes]
rs3828032	0.84[ASN][1000 genomes]
rs45445493	0.89[ASN][1000 genomes]
rs45489701	0.86[ASN][1000 genomes]
rs59745661	0.81[ASN][1000 genomes]
rs5990	0.93[ASN][1000 genomes]
rs5996	0.81[ASN][1000 genomes]
rs5998	0.93[ASN][1000 genomes]
rs60002789	0.86[ASN][1000 genomes]
rs61820789	0.86[ASN][1000 genomes]
rs61820800	0.84[ASN][1000 genomes]
rs66511405	0.85[ASN][1000 genomes]
rs6702252	0.93[ASN][1000 genomes]
rs698859	0.80[ASN][1000 genomes]
rs72468006	0.86[ASN][1000 genomes]
rs7514071	0.86[ASN][1000 genomes]
rs7518773	0.89[ASN][1000 genomes]
rs7535993	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7541682	0.81[ASN][1000 genomes]
rs857018	0.89[ASN][1000 genomes]
rs857024	0.84[ASN][1000 genomes]
rs9427652	0.86[ASN][1000 genomes]
rs9427934	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv528460	chr1:196542567-197446702	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	esv2757766	chr1:196590837-196961802	Enhancers Active TSS Weak transcription Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv428290	chr1:196590837-196961802	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
4	esv2758990	chr1:196590837-197169772	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
5	nsv427897	chr1:196590837-197169772	Enhancers Strong transcription Active TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
6	esv1806946	chr1:196673954-196974876	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent/Poised TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
7	esv2756880	chr1:196709223-197066074	ZNF genes & repeats Active TSS Strong transcription Bivalent/Poised TSS Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
8	esv2750822	chr1:196731148-196993973	Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
9	nsv430124	chr1:196731148-196993973	Enhancers Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
10	esv34978	chr1:196733133-197011577	Active TSS Enhancers Bivalent/Poised TSS Flanking Active TSS Weak transcription Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
11	nsv430158	chr1:196733133-197011577	Enhancers Bivalent/Poised TSS Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
12	nsv430180	chr1:196739837-197007479	Active TSS Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
13	nsv1003814	chr1:196825211-196982487	Flanking Active TSS Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Bivalent Enhancer Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
14	nsv1003573	chr1:196825211-197005106	Bivalent Enhancer Active TSS Flanking Active TSS Enhancers Bivalent/Poised TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:196960000-196961400	Enhancers	Liver	Liver
2	chr1:196960800-196961200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr1:196960800-196961200	Enhancers	HUES64 Cell Line	embryonic stem cell
4	chr1:196960800-196961200	Active TSS	iPS-18 Cell Line	embryonic stem cell
5	chr1:196960800-196961400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr1:196960800-196961600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr1:196960800-196961600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr1:196960800-196961600	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
9	chr1:196960800-196961600	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
10	chr1:196960800-196961600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
11	chr1:196960800-196961800	Enhancers	H1 Cell Line	embryonic stem cell
12	chr1:196960800-196961800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr1:196960800-196962000	Active TSS	HepG2	liver
14	chr1:196961000-196961200	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr1:196961000-196961200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr1:196961000-196961200	Enhancers	HUES48 Cell Line	embryonic stem cell
17	chr1:196961000-196961200	Enhancers	A549	lung
18	chr1:196961000-196961200	Enhancers	Osteobl	bone
19	chr1:196961000-196961600	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
20	chr1:196961000-196961600	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr1:196961000-196961800	Active TSS	ES-I3 Cell Line	embryonic stem cell
22	chr1:196961000-196961800	Active TSS	ES-WA7 Cell Line	embryonic stem cell
23	chr1:196961000-196961800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr1:196961000-196961800	Enhancers	H9 Cell Line	embryonic stem cell
25	chr1:196961000-196961800	Enhancers	Pancreas	Pancrea

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