Variant report

Variant	rs56089878
Chromosome Location	chr1:173031912-173031913
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10912522	1.00[AMR][1000 genomes]
rs12066784	1.00[AMR][1000 genomes]
rs12073776	1.00[AMR][1000 genomes]
rs12079981	1.00[AMR][1000 genomes]
rs55936451	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57008526	1.00[AMR][1000 genomes]
rs57256775	1.00[AMR][1000 genomes]
rs57931692	1.00[AMR][1000 genomes]
rs59267044	1.00[AMR][1000 genomes]
rs60158523	1.00[AMR][1000 genomes]
rs60825363	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61355037	0.91[AFR][1000 genomes]
rs6425209	1.00[AMR][1000 genomes]
rs74125826	1.00[AMR][1000 genomes]
rs74125829	1.00[AMR][1000 genomes]
rs74126792	1.00[AMR][1000 genomes]
rs74126798	1.00[AMR][1000 genomes]
rs74129514	1.00[AMR][1000 genomes]
rs74129516	1.00[AMR][1000 genomes]
rs74129520	1.00[AMR][1000 genomes]
rs74129521	1.00[AMR][1000 genomes]
rs74129522	1.00[AMR][1000 genomes]
rs74129523	1.00[AMR][1000 genomes]
rs74129525	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74129526	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74129527	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74129528	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74129529	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74129530	1.00[AMR][1000 genomes]
rs74129531	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74129534	1.00[AMR][1000 genomes]
rs74129538	1.00[AMR][1000 genomes]
rs74129543	1.00[AMR][1000 genomes]
rs973185	1.00[AMR][1000 genomes]
rs980003	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv831904	chr1:172912110-173070429	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv533953	chr1:172939335-173133255	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:173030400-173032000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr1:173030600-173032000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr1:173030600-173032200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr1:173030600-173032400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr1:173030600-173033200	Enhancers	NHEK	skin
6	chr1:173030800-173032400	Enhancers	HMEC	breast
7	chr1:173030800-173033600	Enhancers	Fetal Lung	lung
8	chr1:173031000-173032000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr1:173031000-173032000	Enhancers	HUVEC	blood vessel
10	chr1:173031200-173032000	Enhancers	Hela-S3	cervix
11	chr1:173031200-173033200	Enhancers	NHDF-Ad	bronchial
12	chr1:173031400-173032400	Enhancers	Dnd41	blood
13	chr1:173031800-173033000	Weak transcription	NHLF	lung
14	chr1:173031800-173033200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr1:173031800-173033200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr1:173031800-173033600	Weak transcription	Placenta Amnion	Placenta Amnion

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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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