Variant report

Variant	rs7873525
Chromosome Location	chr9:97262031-97262032
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	chr9:97245654..97249341-chr9:97260999..97264040,3	MCF-7	breast:

Extended variants
information (count: 39 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs2049008	0.84[ASN][1000 genomes]
rs4509403	0.86[ASN][1000 genomes]
rs4743953	0.86[ASN][1000 genomes]
rs4743954	0.90[ASN][1000 genomes]
rs4743955	0.85[ASN][1000 genomes]
rs4744346	0.90[ASN][1000 genomes]
rs688165	0.82[ASN][1000 genomes]
rs7020879	0.87[ASN][1000 genomes]
rs7024159	0.86[ASN][1000 genomes]
rs7027465	0.88[ASN][1000 genomes]
rs7027489	0.84[ASN][1000 genomes]
rs7031088	1.00[CEU][hapmap];0.95[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7031496	0.90[ASN][1000 genomes]
rs7031949	0.90[ASN][1000 genomes]
rs7037190	0.90[ASN][1000 genomes]
rs7037198	0.87[ASN][1000 genomes]
rs7040710	0.88[ASN][1000 genomes]
rs7041503	0.86[ASN][1000 genomes]
rs7047279	0.87[ASN][1000 genomes]
rs7047295	0.91[ASN][1000 genomes]
rs7047930	0.90[ASN][1000 genomes]
rs7048688	0.90[ASN][1000 genomes]
rs7848227	0.90[ASN][1000 genomes]
rs7853182	0.95[CEU][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7868562	0.92[ASN][1000 genomes]
rs9299421	0.84[ASN][1000 genomes]
rs9299422	0.85[ASN][1000 genomes]
rs9409759	0.90[ASN][1000 genomes]
rs9409777	0.87[ASN][1000 genomes]
rs9409779	0.87[ASN][1000 genomes]
rs9409792	0.87[ASN][1000 genomes]
rs9777207	0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	esv2761545	chr9:97025298-97356950	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv1041195	chr9:97054795-97402378	Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
4	esv1840205	chr9:97202200-97366400	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
5	nsv893594	chr9:97221463-97283226	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
6	nsv614916	chr9:97245822-97273659	Enhancers Weak transcription	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv969761	chr9:97254596-97288069	Enhancers Weak transcription	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs7873525	HIATL1	Cis_1M	lymphoblastoid	RTeQTL
rs7873525	HIATL1	cis	Skin Sun Exposed Lower leg	GTEx
rs7873525	HIATL1	cis	lung	GTEx

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97241800-97262800	Weak transcription	Liver	Liver
2	chr9:97261200-97272600	Weak transcription	Pancreas	Pancrea
3	chr9:97261400-97262200	Enhancers	Duodenum Mucosa	Duodenum

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