Variant report

Variant	rs9299417
Chromosome Location	chr9:97019382-97019383
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:97017106..97019746-chr9:97019872..97021495,2	K562	blood:
2	chr9:97015612..97017858-chr9:97018523..97020622,2	MCF-7	breast:
3	chr9:97000881..97002624-chr9:97017487..97019622,2	K562	blood:

Extended variants
information (count: 30 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs11789111	0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs11791327	0.84[ASN][1000 genomes]
rs11791619	0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs11793128	1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap]
rs11795331	1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap]
rs12343123	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs1536690	0.85[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap]
rs1878875	0.82[JPT][hapmap]
rs4744330	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs56849060	0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs62578818	0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs62578821	0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6479545	0.82[CHB][hapmap]
rs7019137	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs7025878	0.82[JPT][hapmap]
rs7034153	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs7036474	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs7037298	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs7045712	0.85[CHB][hapmap]
rs7046779	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs722353	0.82[JPT][hapmap]
rs7859571	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs7874441	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9632920	0.85[CHB][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
rs9299417	HIATL1	cis	lung	GTEx
rs9299417	FLJ14753	cis	multi-tissue	Pritchard

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97013800-97020800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
2	chr9:97018000-97020800	Weak transcription	Primary T helper cells fromperipheralblood	blood
3	chr9:97019200-97020800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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