Table 2 APA databases

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]