Variant report

Variant	rs12415087
Chromosome Location	chr10:28271283-28271284
allele	A/G
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:18)

rs_ID	r²[population]
rs12411354	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12412406	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12763599	0.94[EUR][1000 genomes]
rs12763775	0.96[CEU][hapmap];0.92[GIH][hapmap];0.84[MEX][hapmap];0.93[TSI][hapmap];0.94[EUR][1000 genomes]
rs12773866	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12779067	1.00[CEU][hapmap];0.92[GIH][hapmap];0.94[MEX][hapmap];0.96[TSI][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs34440350	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34462779	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs34942945	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs34944477	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35494740	0.96[EUR][1000 genomes]
rs35535377	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs35969112	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs35987811	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs3808909	1.00[CEU][hapmap];0.92[GIH][hapmap];0.89[MEX][hapmap];0.96[TSI][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4749290	1.00[CEU][hapmap];0.92[GIH][hapmap];0.89[MEX][hapmap];0.95[MKK][hapmap];0.96[TSI][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4749291	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7081236	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][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	nsv917149	chr10:28018919-28688694	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv894987	chr10:28165502-28326775	ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv831815	chr10:28235661-28407533	Strong transcription Enhancers Bivalent/Poised TSS Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
4	nsv1052182	chr10:28259142-28361830	Strong transcription Weak transcription ZNF genes & repeats Bivalent/Poised TSS Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
5	nsv1067903	chr10:28270060-28275320	Weak transcription Strong transcription Active TSS	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:28239800-28287200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr10:28251000-28283800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr10:28262600-28276000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr10:28265800-28278600	Weak transcription	Ovary	ovary
5	chr10:28268200-28271400	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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Input of quick search could be:

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

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