Variant report

Variant	rs28629289
Chromosome Location	chr3:78889612-78889613
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs11127634	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1480687	0.84[EUR][1000 genomes]
rs1480688	0.85[EUR][1000 genomes]
rs162870	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1843786	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs439325	0.93[ASN][1000 genomes]
rs9309819	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9835958	0.85[EUR][1000 genomes]
rs9837982	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9861264	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9873248	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9877603	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9881587	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][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	nsv1010804	chr3:78739648-79087470	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv533681	chr3:78750924-79017336	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:78882000-78894800	Weak transcription	Fetal Intestine Small	intestine
2	chr3:78886200-78895800	Weak transcription	NHLF	lung
3	chr3:78887200-78893000	Enhancers	HepG2	liver
4	chr3:78887800-78896000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr3:78888800-78889800	Enhancers	Brain Substantia Nigra	brain
6	chr3:78889000-78894800	Weak transcription	Fetal Lung	lung
7	chr3:78889200-78890600	Enhancers	Brain Anterior Caudate	brain
8	chr3:78889400-78890400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
9	chr3:78889400-78896000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr3:78889400-78898800	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr3:78889400-78899000	Weak transcription	Brain Hippocampus Middle	brain
12	chr3:78889600-78896200	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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