Variant report

Variant	rs7025414
Chromosome Location	chr9:97338551-97338552
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10115132	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10120467	0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35600708	0.86[EUR][1000 genomes]
rs3852401	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4744354	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs55869080	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs55983816	0.97[EUR][1000 genomes]
rs56144694	0.83[EUR][1000 genomes]
rs56385954	0.83[EUR][1000 genomes]
rs56404355	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73653487	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7851565	0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	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
3	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
4	nsv893596	chr9:97321172-97598966	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs7025414	HIATL1	cis	lung	GTEx
rs7025414	HIATL1	Cis_1M	lymphoblastoid	RTeQTL
rs7025414	RP11-307E17.8	cis	Esophagus Muscularis	GTEx

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97317200-97354000	Weak transcription	Gastric	stomach
2	chr9:97325800-97339200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr9:97326800-97339200	Weak transcription	Fetal Stomach	stomach
4	chr9:97331400-97340000	Weak transcription	Skeletal Muscle Male	skeletal muscle
5	chr9:97335000-97349600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr9:97336800-97339600	Strong transcription	Skeletal Muscle Female	skeletal muscle
7	chr9:97338200-97339600	Enhancers	Primary monocytes fromperipheralblood	blood
8	chr9:97338200-97339600	Enhancers	Primary hematopoietic stem cells short term culture	blood
9	chr9:97338400-97338600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
10	chr9:97338400-97338800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr9:97338400-97339400	Enhancers	GM12878-XiMat	blood

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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