| URL: | http://gong_lab.hzau.edu.cn/Animal-APAdb |
| Full name: | |
| Description: | A comprehensive animal alternative polyadenylation database. |
| Year founded: | 2021 |
| Last update: | |
| Version: | |
| Accessibility: |
Manual:
Accessible
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| Country/Region: | China |
| Data type: | |
| Data object: | |
| Database category: | |
| Major species: |
Homo sapiens
Mus musculus
Rattus nativitatis
Papio anubis
Gallus gallus
Pan troglodytes
Xenopus tropicalis
Bos taurus
Macaca fascicularis
Drosophila melanogaster
Chlorocebus sabaeus
Equus caballus
Sus scrofa
Oryctolagus cuniculus
Rattus norvegicus
Macaca mulatta
Ovis aries
Caenorhabditis elegans
Danio rerio
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| Keywords: |
| University/Institution: | Huazhong Agricultural University |
| Address: | Hubei Key Laboratory of Agricultural Bioinformatics, College of Informatics, Huazhong Agricultural University, Wuhan 430070, P.R. China. |
| City: | Wuhan |
| Province/State: | Hubei |
| Country/Region: | China |
| Contact name (PI/Team): | Jing Gong |
| Contact email (PI/Helpdesk): | gong.jing@mail.hzau.edu.cn |
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Animal-APAdb: a comprehensive animal alternative polyadenylation database. [PMID: 32986825]
Alternative polyadenylation (APA) is an important post-transcriptional regulatory mechanism that recognizes different polyadenylation signals on transcripts, resulting in transcripts with different lengths of 3' untranslated regions and thereby influencing a series of biological processes. Recent studies have highlighted the important roles of APA in human. However, APA profiles in other animals have not been fully recognized, and there is no database that provides comprehensive APA information for other animals except human. Here, by using the RNA sequencing data collected from public databases, we systematically characterized the APA profiles in 9244 samples of 18 species. In total, we identified 342 952 APA events with a median of 17 020 per species using the DaPars2 algorithm, and 315 691 APA events with a median of 17 953 per species using the QAPA algorithm in these 18 species, respectively. In addition, we predicted the polyadenylation sites (PAS) and motifs near PAS of these species. We further developed Animal-APAdb, a user-friendly database (http://gong_lab.hzau.edu.cn/Animal-APAdb/) for data searching, browsing and downloading. With comprehensive information of APA events in different tissues of different species, Animal-APAdb may greatly facilitate the exploration of animal APA patterns and novel mechanisms, gene expression regulation and APA evolution across tissues and species. |