Variant report

Variant	rs17009397
Chromosome Location	chr3:21778059-21778060
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs11711566	1.00[ASW][hapmap];0.92[GIH][hapmap];0.85[MEX][hapmap];0.91[TSI][hapmap];1.00[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs11712782	0.81[TSI][hapmap]
rs11718397	1.00[ASW][hapmap];0.92[GIH][hapmap];0.91[TSI][hapmap];1.00[AFR][1000 genomes]
rs12635315	0.80[EUR][1000 genomes]
rs17009418	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs17029425	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs73046249	0.82[EUR][1000 genomes]
rs73046250	0.82[EUR][1000 genomes]
rs73046291	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.82[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	nsv534005	chr3:21387588-22003293	Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1010460	chr3:21516810-21839871	Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv1007048	chr3:21666807-21865229	Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv536516	chr3:21666807-21865229	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:21771600-21779200	Weak transcription	Aorta	Aorta
2	chr3:21772200-21782400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr3:21776600-21788800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr3:21777400-21778200	Enhancers	iPS-15b Cell Line	embryonic stem cell
5	chr3:21777800-21781600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr3:21778000-21778200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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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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