Variant report

Variant	rs13317509
Chromosome Location	chr3:158059559-158059560
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs28402668	0.97[AFR][1000 genomes]
rs6441190	0.98[AFR][1000 genomes]
rs6441192	0.94[AFR][1000 genomes]
rs6767072	0.90[AFR][1000 genomes]
rs6776674	0.97[AFR][1000 genomes]
rs6787212	0.97[AFR][1000 genomes]
rs6790259	0.90[AFR][1000 genomes]
rs73028775	0.90[AFR][1000 genomes]
rs7627082	0.97[AFR][1000 genomes]
rs7635356	0.88[AFR][1000 genomes]
rs827133	0.85[AFR][1000 genomes]
rs9821945	0.93[AFR][1000 genomes]
rs9829790	0.95[AFR][1000 genomes]
rs9843252	0.95[AFR][1000 genomes]
rs9872642	0.98[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013391	chr3:157505943-158115553	Flanking Active TSS Bivalent/Poised TSS Weak transcription ZNF genes & repeats Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv536775	chr3:157505943-158115553	Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv1002378	chr3:157715428-158673414	Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
4	nsv877689	chr3:157858930-158133307	Strong transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv916910	chr3:157926799-158183372	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:158047800-158064800	Weak transcription	Ovary	ovary
2	chr3:158047800-158077800	Weak transcription	Gastric	stomach
3	chr3:158048000-158059800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr3:158048200-158079400	Weak transcription	Right Ventricle	heart
5	chr3:158055000-158077200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr3:158055200-158086000	Weak transcription	Left Ventricle	heart
7	chr3:158057800-158079600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr3:158059000-158060000	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	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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