Variant report

Variant	rs28967878
Chromosome Location	chr2:51945296-51945297
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11902990	1.00[AMR][1000 genomes]
rs17864582	0.88[AFR][1000 genomes]
rs28949278	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28960998	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28961315	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28961319	0.86[AFR][1000 genomes]
rs28961320	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28961335	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28961343	0.86[AFR][1000 genomes]
rs28961618	0.86[AFR][1000 genomes]
rs28961621	0.83[AFR][1000 genomes]
rs28961625	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28963376	1.00[AMR][1000 genomes]
rs28967884	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28967888	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28967890	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58028999	0.83[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1001552	chr2:51225970-52139741	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv535708	chr2:51225970-52139741	Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv874069	chr2:51723107-52006583	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv1011738	chr2:51731251-51976068	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv1009513	chr2:51890060-52821980	ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
6	nsv1008696	chr2:51920617-51949532	Weak transcription Flanking Active TSS Enhancers Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv874079	chr2:51935797-52083566	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:51944600-51949000	Weak transcription	Hela-S3	cervix
2	chr2:51945200-51945800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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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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