Variant report

Variant	rs9894321
Chromosome Location	chr17:17438085-17438086
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	chr17:17437526..17439818-chr17:17494409..17495948,2	MCF-7	breast:
2	chr17:17431321..17433424-chr17:17436533..17438889,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000133027	Chromatin interaction
ENSG00000264666	Chromatin interaction

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs11651620	0.98[ASN][1000 genomes]
rs11654842	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12941371	0.96[ASN][1000 genomes]
rs12948060	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2124344	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4244594	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4244596	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4244598	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4646347	0.81[EUR][1000 genomes]
rs4646349	0.81[EUR][1000 genomes]
rs4646350	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4646351	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4646357	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4646369	0.83[EUR][1000 genomes]
rs4646370	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4646372	0.80[AFR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4646387	0.98[ASN][1000 genomes]
rs4646390	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4646391	0.98[ASN][1000 genomes]
rs4646392	0.98[ASN][1000 genomes]
rs4646394	0.99[ASN][1000 genomes]
rs4646395	0.98[ASN][1000 genomes]
rs4646397	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4924922	0.83[EUR][1000 genomes]
rs6502603	0.94[ASN][1000 genomes]
rs7209113	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7221487	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs729974	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs747770	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs750546	0.98[ASN][1000 genomes]
rs8079427	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs8080165	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8082417	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs897451	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9892560	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9893179	0.95[ASN][1000 genomes]
rs9894588	0.86[AMR][1000 genomes];0.97[EUR][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	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	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
6	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
7	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
8	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
9	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
10	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
11	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
12	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
13	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
14	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:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:17418200-17478000	Weak transcription	Primary T cells from cord blood	blood
2	chr17:17419600-17447000	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr17:17421000-17439200	Weak transcription	HSMM	muscle
4	chr17:17424600-17460000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr17:17427200-17440600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr17:17430200-17438800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr17:17430200-17439200	Weak transcription	Brain Cingulate Gyrus	brain
8	chr17:17431800-17439400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr17:17432000-17439600	Weak transcription	Fetal Intestine Small	intestine
10	chr17:17432600-17441200	Weak transcription	Ovary	ovary
11	chr17:17432800-17439000	Weak transcription	Psoas Muscle	Psoas
12	chr17:17432800-17442600	Weak transcription	Spleen	Spleen
13	chr17:17433000-17439200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr17:17433000-17439200	Weak transcription	Gastric	stomach
15	chr17:17433200-17438400	Weak transcription	Skeletal Muscle Male	skeletal muscle
16	chr17:17433200-17438600	Weak transcription	Fetal Heart	heart
17	chr17:17433200-17439200	Weak transcription	Pancreas	Pancrea
18	chr17:17433200-17439600	Weak transcription	Rectal Mucosa Donor 31	rectum
19	chr17:17434800-17448600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr17:17435000-17440600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr17:17436000-17438800	Weak transcription	Fetal Muscle Leg	muscle
22	chr17:17436600-17441000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr17:17436600-17441600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
24	chr17:17436800-17479200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
25	chr17:17437600-17438800	Weak transcription	Liver	Liver
26	chr17:17437800-17439200	Weak transcription	Stomach Mucosa	stomach
27	chr17:17437800-17439400	Weak transcription	Fetal Lung	lung
28	chr17:17438000-17439200	Weak transcription	HepG2	liver

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