Variant report

Variant	rs9409710
Chromosome Location	chr9:97009024-97009025
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	chr9:96927406..96930148-chr9:97007636..97010398,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000269946	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10512230	0.96[CEU][hapmap];0.80[EUR][1000 genomes]
rs10739971	0.96[CEU][hapmap];0.82[EUR][1000 genomes]
rs10761320	0.96[CEU][hapmap];0.80[EUR][1000 genomes]
rs10761323	0.83[EUR][1000 genomes]
rs10761324	0.96[CEU][hapmap];0.81[EUR][1000 genomes]
rs10821305	0.80[EUR][1000 genomes]
rs10821306	0.80[EUR][1000 genomes]
rs10821310	0.80[EUR][1000 genomes]
rs10821311	0.83[EUR][1000 genomes]
rs10821316	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10821317	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10993072	0.96[CEU][hapmap];0.80[EUR][1000 genomes]
rs10993073	0.80[EUR][1000 genomes]
rs10993074	0.80[EUR][1000 genomes]
rs10993095	0.84[ASW][hapmap];1.00[CEU][hapmap];1.00[MKK][hapmap];0.97[TSI][hapmap];0.83[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs10993096	1.00[CEU][hapmap];0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10993097	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10993100	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11790972	0.83[EUR][1000 genomes]
rs12004367	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12551019	0.84[EUR][1000 genomes]
rs13293512	0.81[EUR][1000 genomes]
rs2039012	0.96[CEU][hapmap];0.83[EUR][1000 genomes]
rs34181781	0.83[EUR][1000 genomes]
rs7025395	0.96[CEU][hapmap];0.81[EUR][1000 genomes]
rs7030004	1.00[CEU][hapmap];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7865876	0.95[CEU][hapmap];0.81[EUR][1000 genomes]
rs9409498	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[MEX][hapmap];1.00[MKK][hapmap];0.97[TSI][hapmap]
rs9409706	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[MEX][hapmap];1.00[MKK][hapmap];0.94[TSI][hapmap];0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9409709	1.00[CEU][hapmap]

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	nsv831655	chr9:96834042-97042009	Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	218 gene(s)	inside rSNPs	diseases
2	esv3394266	chr9:96935210-97045514	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	195 gene(s)	inside rSNPs	diseases
3	nsv893592	chr9:96973995-97295269	Strong transcription ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
4	nsv1054784	chr9:96976419-97025515	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv540174	chr9:96976419-97025515	Weak transcription Flanking Active TSS Enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv1046906	chr9:96999227-97239809	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9409710	PTPDC1	cis	parietal	SCAN
rs9409710	HIATL1	cis	parietal	SCAN

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
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