Variant report

Variant	rs62278490
Chromosome Location	chr3:142436939-142436940
allele	A/C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10935467	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11915810	0.88[AMR][1000 genomes]
rs11929069	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13060062	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13064897	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs13081255	0.88[AMR][1000 genomes]
rs13087943	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13092601	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13094259	0.85[EUR][1000 genomes]
rs1916638	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs34084493	0.88[AMR][1000 genomes]
rs34485065	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs34941168	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs36085850	0.88[AMR][1000 genomes]
rs55968753	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs62278492	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62278493	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62278494	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62278495	0.85[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	nsv591920	chr3:142411200-142496951	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv521098	chr3:142411200-142503605	Weak transcription Active TSS Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv520533	chr3:142417070-142440299	Weak transcription Strong transcription Enhancers	TF binding region CpG island Chromatin interactive region miRNA target site	3 gene(s)	inside rSNPs	diseases
4	nsv518623	chr3:142417070-142503605	Weak transcription Active TSS Enhancers Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:142389800-142442400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
2	chr3:142429400-142442400	Weak transcription	NH-A	brain
3	chr3:142429600-142442200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr3:142431600-142442400	Weak transcription	Duodenum Mucosa	Duodenum
5	chr3:142431800-142442600	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr3:142433200-142437200	Weak transcription	Rectal Mucosa Donor 29	rectum
7	chr3:142434200-142442200	Weak transcription	A549	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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