Variant report

Variant	rs3958853
Chromosome Location	chr5:126946878-126946879
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10058899	0.84[ASN][1000 genomes]
rs10478777	0.84[ASN][1000 genomes]
rs10478778	0.91[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs1382330	0.81[AMR][1000 genomes]
rs3851477	0.91[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs3906535	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3911929	0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs57415096	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59602591	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6595783	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6865264	0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6870400	0.91[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6870457	0.91[AMR][1000 genomes]
rs73337180	0.82[AMR][1000 genomes]
rs73339074	0.81[AMR][1000 genomes]
rs7708938	0.91[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9327447	0.81[AMR][1000 genomes];0.92[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	nsv1033607	chr5:126385181-127304459	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
2	nsv830479	chr5:126849254-127053121	Genic enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv1021483	chr5:126927834-127304873	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv519906	chr5:126943293-126955918	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:126942200-126947800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr5:126944200-126951400	Weak transcription	NHEK	skin
3	chr5:126944600-126951600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr5:126944600-126960400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr5:126945000-126948000	Weak transcription	HMEC	breast

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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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