Variant report

Variant	rs58788162
Chromosome Location	chr9:108680647-108680648
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	chr9:108674993..108676836-chr9:108680080..108681610,2	MCF-7	breast:
2	chr9:108677046..108679182-chr9:108680065..108682717,4	MCF-7	breast:

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs12001361	0.96[AFR][1000 genomes]
rs12001396	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12004099	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13302213	0.82[EUR][1000 genomes]
rs16925055	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16925065	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs16925083	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17285222	0.82[EUR][1000 genomes]
rs1987249	0.96[AFR][1000 genomes]
rs34235964	0.85[EUR][1000 genomes]
rs34773238	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35115335	1.00[EUR][1000 genomes]
rs56105641	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59888664	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs60607803	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs61312776	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7031020	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71494570	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71494574	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs73667082	0.80[AFR][1000 genomes]
rs7847775	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7850106	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7861494	0.93[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893693	chr9:108427062-108683134	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv893694	chr9:108486533-108854018	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv1041073	chr9:108535813-108731343	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv1052684	chr9:108582944-108730280	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv615140	chr9:108592589-108725567	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv831679	chr9:108603112-108785347	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:108674000-108683600	Weak transcription	Left Ventricle	heart
2	chr9:108674400-108683000	Weak transcription	Fetal Heart	heart
3	chr9:108674600-108683600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr9:108675400-108680800	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr9:108676600-108682800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr9:108677600-108680800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr9:108680200-108680800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr9:108680600-108681200	Enhancers	HUES48 Cell Line	embryonic stem cell
9	chr9:108680600-108681200	Enhancers	iPS-18 Cell Line	embryonic stem cell
10	chr9:108680600-108681400	Enhancers	HUES64 Cell Line	embryonic stem cell
11	chr9:108680600-108681400	Enhancers	iPS-20b Cell Line	embryonic stem cell

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