Variant report

Variant	rs4609252
Chromosome Location	chr9:108717129-108717130
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:108660253..108666422-chr9:108715149..108718235,9	MCF-7	breast:
2	chr9:108669187..108678029-chr9:108711816..108723206,29	MCF-7	breast:
3	chr9:108715942..108718890-chr9:109624483..109628580,4	MCF-7	breast:
4	chr9:108715283..108717555-chr9:109046666..109048647,2	MCF-7	breast:
5	chr9:108715768..108718223-chr9:108919193..108921153,2	MCF-7	breast:
6	chr9:108671913..108676613-chr9:108714105..108718467,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000148143	Chromatin interaction

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

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

rs_ID	r²[population]
rs10733558	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10759156	0.88[ASN][1000 genomes]
rs10816354	0.81[AFR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10816356	1.00[CHB][hapmap];0.94[JPT][hapmap];0.97[ASN][1000 genomes]
rs10978344	0.88[ASN][1000 genomes]
rs10978345	0.88[ASN][1000 genomes]
rs10978346	0.88[ASN][1000 genomes]
rs10978361	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10978362	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1984676	0.90[AFR][1000 genomes];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2417669	0.83[ASN][1000 genomes]
rs2417670	0.88[ASN][1000 genomes]
rs2417677	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2417678	1.00[CEU][hapmap];0.88[CHB][hapmap];0.90[JPT][hapmap];0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2900407	0.80[ASN][1000 genomes]
rs4076012	0.92[CEU][hapmap];0.87[CHB][hapmap];0.90[JPT][hapmap];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4387040	0.93[ASN][1000 genomes]
rs4742659	0.96[ASN][1000 genomes]
rs55721325	0.81[ASN][1000 genomes]
rs55735471	0.81[ASN][1000 genomes]
rs7865804	0.84[ASN][1000 genomes]
rs7866652	0.80[ASN][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:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:108716800-108717200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
2	chr9:108717000-108717200	Enhancers	iPS-15b Cell Line	embryonic stem cell
3	chr9:108717000-108717600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
4	chr9:108717000-108718000	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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