Variant report

Variant	rs73290168
Chromosome Location	chr17:17574884-17574885
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	chr17:17574373..17576298-chr17:17580834..17583578,2	MCF-7	breast:
2	chr17:17564834..17568175-chr17:17574678..17576692,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000223979	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs12103424	1.00[AMR][1000 genomes]
rs55771242	1.00[AMR][1000 genomes]
rs55857551	1.00[AMR][1000 genomes]
rs56346131	1.00[AMR][1000 genomes]
rs58246526	1.00[AMR][1000 genomes]
rs59995125	1.00[AMR][1000 genomes]
rs68181410	1.00[AMR][1000 genomes]
rs73292335	1.00[AMR][1000 genomes]
rs73292342	1.00[AMR][1000 genomes]
rs73294322	1.00[AMR][1000 genomes]
rs73294332	1.00[AMR][1000 genomes]
rs73295661	1.00[AMR][1000 genomes]
rs73295695	1.00[AMR][1000 genomes]
rs73297806	1.00[AMR][1000 genomes]
rs73298550	1.00[AMR][1000 genomes]
rs73298582	1.00[AMR][1000 genomes]
rs9905548	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	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
3	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
4	nsv833384	chr17:17491483-17645648	Flanking Active TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Active TSS Genic enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
5	nsv869118	chr17:17509896-17599850	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
6	nsv907751	chr17:17530554-17581184	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
7	nsv907752	chr17:17569012-17750907	Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	77 gene(s)	inside rSNPs	diseases
8	nsv531183	chr17:17571035-18205309	Genic enhancers Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	123 gene(s)	inside rSNPs	diseases
9	nsv907753	chr17:17573539-17747289	Genic enhancers Enhancers Strong transcription Bivalent Enhancer Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	77 gene(s)	inside rSNPs	diseases
10	nsv907754	chr17:17573539-17782404	Strong transcription Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	78 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:17567200-17575400	Weak transcription	Primary hematopoietic stem cells	blood
2	chr17:17567200-17579200	Weak transcription	K562	blood
3	chr17:17567400-17575400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr17:17568200-17576200	Weak transcription	Spleen	Spleen
5	chr17:17569000-17575600	Weak transcription	GM12878-XiMat	blood
6	chr17:17570000-17576000	Weak transcription	Right Ventricle	heart
7	chr17:17570200-17575600	Weak transcription	Hela-S3	cervix
8	chr17:17571000-17575600	Enhancers	Primary hematopoietic stem cells short term culture	blood
9	chr17:17572200-17577600	Enhancers	Fetal Heart	heart
10	chr17:17572400-17575000	Enhancers	Fetal Brain Male	brain
11	chr17:17572600-17575400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr17:17572800-17575000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr17:17572800-17575600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr17:17573000-17575000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr17:17573800-17575000	Enhancers	Fetal Intestine Large	intestine
16	chr17:17573800-17575200	Enhancers	Left Ventricle	heart
17	chr17:17573800-17575400	Enhancers	Breast Myoepithelial Primary Cells	Breast
18	chr17:17573800-17576800	Enhancers	HMEC	breast
19	chr17:17573800-17579200	Weak transcription	Thymus	Thymus
20	chr17:17574000-17575200	Enhancers	Duodenum Mucosa	Duodenum
21	chr17:17574000-17575400	Weak transcription	Fetal Thymus	thymus
22	chr17:17574000-17575800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr17:17574200-17575600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr17:17574400-17575200	Bivalent Enhancer	Fetal Stomach	stomach
25	chr17:17574400-17575200	Enhancers	Rectal Mucosa Donor 29	rectum
26	chr17:17574400-17576200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr17:17574400-17577400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr17:17574600-17575200	Enhancers	Lung	lung
29	chr17:17574600-17575600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr17:17574600-17576200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr17:17574800-17575000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
32	chr17:17574800-17575000	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin02	Skin
33	chr17:17574800-17575000	Bivalent Enhancer	HepG2	liver
34	chr17:17574800-17575200	Enhancers	Right Atrium	heart
35	chr17:17574800-17576600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
36	chr17:17574800-17579400	Weak transcription	Fetal Intestine Small	intestine
37	chr17:17574800-17583600	Weak transcription	Rectal Mucosa Donor 31	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links