Variant report

Variant	rs4646396
Chromosome Location	chr17:17432744-17432745
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr17:17412469..17415269-chr17:17430447..17432803,2	MCF-7	breast:
2	chr17:17431321..17433424-chr17:17436533..17438889,2	MCF-7	breast:

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs11078389	0.94[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs11651620	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11656215	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11867345	0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11871667	0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12939945	0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12941371	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12945144	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1531100	0.94[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35656361	0.84[AMR][1000 genomes]
rs4646346	0.96[ASN][1000 genomes]
rs4646349	0.96[ASN][1000 genomes]
rs4646352	0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4646356	0.94[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4646358	0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4646359	0.94[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4646365	0.94[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4646368	0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4646369	0.96[ASN][1000 genomes]
rs4646385	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4646387	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4646388	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4646391	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4646392	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4646394	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4646395	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6502603	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs729975	0.94[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs744925	0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs750546	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs897450	0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs936108	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9893179	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9894588	0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv482648	chr17:17315268-17455442	Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Weak transcription Active TSS Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv907731	chr17:17358004-17504856	Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
3	nsv907735	chr17:17381764-17448589	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
4	nsv907736	chr17:17381764-17465458	Strong transcription Weak transcription Genic enhancers Flanking Active TSS Enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
5	nsv907742	chr17:17404586-17432744	Weak transcription Strong transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
6	nsv907743	chr17:17404586-17448589	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
7	nsv907744	chr17:17404586-17504856	Weak transcription Flanking Active TSS Active TSS Enhancers Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
8	nsv907746	chr17:17412032-17478917	Genic enhancers Weak transcription Enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
9	nsv907747	chr17:17412032-17504856	Enhancers Genic enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
10	nsv907748	chr17:17412032-17782404	Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	89 gene(s)	inside rSNPs	diseases
11	nsv907749	chr17:17417169-17448589	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
12	nsv574526	chr17:17422608-17444369	Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
13	nsv470579	chr17:17424332-17493810	Genic enhancers Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
14	nsv1065270	chr17:17430116-17823086	Weak transcription Flanking Active TSS Genic enhancers Enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	91 gene(s)	inside rSNPs	diseases
15	nsv543236	chr17:17430116-17823086	Bivalent Enhancer Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	91 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:17413200-17437400	Weak transcription	Aorta	Aorta
2	chr17:17418200-17478000	Weak transcription	Primary T cells from cord blood	blood
3	chr17:17419600-17447000	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr17:17420600-17434400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr17:17421000-17439200	Weak transcription	HSMM	muscle
6	chr17:17424600-17460000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr17:17427000-17436200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr17:17427200-17440600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr17:17427600-17432800	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr17:17427600-17434400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr17:17428200-17433200	Enhancers	Fetal Muscle Leg	muscle
12	chr17:17428600-17433800	Enhancers	Liver	Liver
13	chr17:17429400-17433200	Enhancers	Fetal Heart	heart
14	chr17:17429800-17433000	Enhancers	Right Ventricle	heart
15	chr17:17430200-17438800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
16	chr17:17430200-17439200	Weak transcription	Brain Cingulate Gyrus	brain
17	chr17:17430600-17432800	Enhancers	Lung	lung
18	chr17:17430800-17432800	Bivalent Enhancer	Fetal Muscle Trunk	muscle
19	chr17:17431000-17433000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr17:17431000-17433000	Enhancers	Gastric	stomach
21	chr17:17431000-17433200	Enhancers	Left Ventricle	heart
22	chr17:17431200-17432800	Enhancers	Psoas Muscle	Psoas
23	chr17:17431200-17432800	Enhancers	Right Atrium	heart
24	chr17:17431200-17432800	Enhancers	Spleen	Spleen
25	chr17:17431400-17433200	Enhancers	Skeletal Muscle Male	skeletal muscle
26	chr17:17431600-17433200	Enhancers	Pancreas	Pancrea
27	chr17:17431800-17439400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr17:17432000-17434800	Weak transcription	Brain Germinal Matrix	brain
29	chr17:17432000-17439600	Weak transcription	Fetal Intestine Small	intestine
30	chr17:17432200-17433400	Enhancers	Stomach Mucosa	stomach
31	chr17:17432400-17433200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr17:17432400-17433400	Enhancers	HepG2	liver
33	chr17:17432600-17433200	Enhancers	Duodenum Mucosa	Duodenum
34	chr17:17432600-17441200	Weak transcription	Ovary	ovary

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