Variant report

Variant	rs58239780
Chromosome Location	chr9:79335573-79335574
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10512059	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12339310	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13440440	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17180718	0.93[ASN][1000 genomes]
rs17180920	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17180962	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17180997	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17181025	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17181032	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17181081	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17786994	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17787036	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17787054	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17787066	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17787120	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17787401	0.89[EUR][1000 genomes]
rs28566501	0.89[ASN][1000 genomes]
rs58110854	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60263333	0.90[EUR][1000 genomes];0.98[ASN][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	nsv869152	chr9:78742197-79583399	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv931033	chr9:78850330-79366454	Genic enhancers Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv1040363	chr9:79246366-79711737	Weak transcription Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv893481	chr9:79304043-79348193	Enhancers Strong transcription Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:79327800-79341800	Weak transcription	Fetal Stomach	stomach
2	chr9:79328000-79341200	Weak transcription	Aorta	Aorta
3	chr9:79333000-79340000	Weak transcription	Stomach Smooth Muscle	stomach
4	chr9:79333200-79338200	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr9:79333200-79346800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr9:79333200-79359000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr9:79333200-79370000	Weak transcription	Muscle Satellite Cultured Cells	--
8	chr9:79333600-79342200	Weak transcription	Rectal Smooth Muscle	rectum
9	chr9:79333600-79344000	Weak transcription	HSMMtube	muscle
10	chr9:79333800-79341000	Weak transcription	Colon Smooth Muscle	Colon
11	chr9:79333800-79342200	Weak transcription	Brain Cingulate Gyrus	brain
12	chr9:79333800-79347800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr9:79334000-79339800	Weak transcription	HSMM	muscle

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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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