Variant report

Variant	rs59131645
Chromosome Location	chr1:84820233-84820234
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs56791370	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57971598	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58909039	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6670929	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6688872	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74095537	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74095544	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74095547	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74095551	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7530088	0.85[AMR][1000 genomes]
rs7548576	0.90[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	nsv830414	chr1:84636738-84824651	Weak transcription Strong transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
2	nsv830426	chr1:84704924-84856229	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:84795800-84827000	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr1:84814200-84828800	Weak transcription	Skeletal Muscle Male	skeletal muscle
3	chr1:84814200-84831400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr1:84814600-84825600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr1:84816600-84821000	Enhancers	Cortex derived primary cultured neurospheres	brain
6	chr1:84817600-84826200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr1:84818000-84820400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr1:84818000-84820400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr1:84818000-84820400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr1:84818800-84820400	Enhancers	NH-A	brain

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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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