Skip to main content

Table 2 APA databases

From: Alternative polyadenylation: methods, mechanism, function, and role in cancer

Name Description Year Species Website Ref.
PolyA-Seq Atlas A quantitative atlas of poly(A) sites using the PolyA-Seq protocol. Filtered sites are available via the UCSC Genome Browser. 2012 human, rhesus, dog, mouse, and rat http://genome.ucsc.edu/ [19]
APADB Database of APA sites and miRNA regulation events. 2014 human, chicken, and mouse http://tools.genxpro.net/apadb/ [148]
APASdb Database of APA sites and heterogeneous cleavage sites downstream of poly(A) signals. 2015 human, mouse and zebrafish http://mosas.sysu.edu.cn/utr [149]
PolyA_DB3 Database of cleavage and Poly(A) sites identified by the 3ʹREADS protocol. 2018 human, mouse, rat, and chicken http://www.polya-db.org/v3 [150]
TC3A Database of robust APA data from 10,537 tumors across 32 cancer types. It is focused on human cancers and utilizes routinely available large-scale RNA-Seq datasets from TCGA. 2018 human http://tc3a.org [151]
PolyAsite2.0 Web portal of poly(A) sites identified by all 3’end sequencing datasets. 2020 human, mouse and worm https://polyasite.unibas.ch [152]
APAatlas Atlas of APA across a large number of normal human tissues from the Genotype-Tissue Expression project. 2020 human https://hanlab.uth.edu/apa/ [153]