Variant report

Variant	rs71494574
Chromosome Location	chr9:108719532-108719533
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:108669187..108678029-chr9:108711816..108723206,29	MCF-7	breast:
2	chr9:108662761..108665200-chr9:108718437..108720079,2	MCF-7	breast:

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs12001361	0.83[AFR][1000 genomes]
rs12001396	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12004099	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13302213	1.00[EUR][1000 genomes]
rs16925055	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs16925065	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs16925083	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17285222	1.00[EUR][1000 genomes]
rs1987249	0.83[AFR][1000 genomes]
rs34235964	0.97[EUR][1000 genomes]
rs34773238	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs34778810	0.83[EUR][1000 genomes]
rs35115335	0.82[EUR][1000 genomes]
rs56105641	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs58788162	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs60607803	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61312776	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7031020	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs71494570	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7847775	0.92[AMR][1000 genomes]
rs7850106	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7861494	0.85[AMR][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	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
2	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
3	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
4	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
5	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
6	nsv1047166	chr9:108693810-108921872	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:108717200-108721400	Enhancers	HUES64 Cell Line	embryonic stem cell
2	chr9:108717400-108720000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr9:108717800-108719600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr9:108718200-108720200	Enhancers	iPS-15b Cell Line	embryonic stem cell
5	chr9:108718200-108721800	Weak transcription	Cortex derived primary cultured neurospheres	brain
6	chr9:108718400-108721600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr9:108718600-108719600	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr9:108718800-108719800	Weak transcription	HUES6 Cell Line	embryonic stem cell
9	chr9:108719200-108720200	Enhancers	iPS-20b Cell Line	embryonic stem cell
10	chr9:108719400-108721600	Enhancers	ES-I3 Cell Line	embryonic stem cell

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