Variant report

Variant	rs28417712
Chromosome Location	chr8:125957887-125957888
allele	A/C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:2)
LncRNA
region (count:12)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

No data

(count:2 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr8:125952528..125955294-chr8:125957402..125959514,3	MCF-7	breast:
2	chr8:125954639..125958551-chr8:125984669..125987266,3	MCF-7	breast:

(count:12 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ZNF572-1	chr8:125957880-125957988	ENSG00000249816
2	lnc-ZNF572-1	chr8:125955512-125957988	ENSG00000249816
3	lnc-ZNF572-1	chr8:125957880-125957988	ENSG00000249816
4	lnc-ZNF572-1	chr8:125956421-125957988	ENSG00000249816
5	lnc-ZNF572-1	chr8:125957877-125957988	ENSG00000249816
6	lnc-ZNF572-1	chr8:125957880-125957988	XLOC_006916
7	lnc-ZNF572-1	chr8:125957880-125957988	XLOC_006916
8	lnc-ZNF572-1	chr8:125957880-125957988	XLOC_006916
9	lnc-ZNF572-1	chr8:125957880-125957988	XLOC_006916
10	lnc-ZNF572-1	chr8:125957880-125957988	XLOC_006916
11	lnc-ZNF572-1	chr8:125955738-125957988	NONHSAT128939
12	lnc-ZNF572-1	chr8:125955512-125957988	XLOC_006916

No data

No data

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

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

rs_ID	r²[population]
rs10091224	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10093690	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10101996	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs28694080	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7018326	0.97[EUR][1000 genomes]
rs7018438	1.00[EUR][1000 genomes]
rs9297703	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9297704	1.00[EUR][1000 genomes]
rs9886513	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][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	nsv891434	chr8:125630655-126324432	Strong transcription Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
2	nsv1030803	chr8:125868684-125969635	Weak transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
3	nsv1024405	chr8:125868684-125971035	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
4	nsv1020502	chr8:125868684-125972572	Active TSS Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:125950000-125958200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	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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