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A web-accessible database which can visualize the precise map and usage quantification of different alternative polyadenylation (APA) isoforms for all genes. The datasets are deeply profiled by the sequencing alternative polyadenylation sites (SAPAS) method capable of high-throughput sequencing 3′-ends of polyadenylated transcripts. Thus, APASdb details all the heterogeneous cleavage sites downstream of poly(A) signals, and maintains near complete coverage for APA sites, much better than the previous databases using conventional methods. Furthermore, APASdb provides the quantification of a given APA variant among transcripts with different APA sites by computing their corresponding normalized-reads, making our database more useful. In addition, APASdb supports URL-based retrieval, browsing and display of exon-intron structure, poly(A) signals, poly(A) sites location and usage reads, and 3′-untranslated regions (3′-UTRs).
Provides a largest database of alternative polyadenylation (APA) in plants, including rice, Arabidopsis, Medicago truncatula, and Chlamydomonas reinhardtii. PlantAPA is a database for query, visualization, and analysis of poly(A) sites in plants, which can profile heterogeneous cleavage sites and quantify expression pattern of poly(A) sites across different conditions. It provides various interactive and dynamic graphics and seamlessly integrates a genome browser that can profile heterogeneous cleavage sites and quantify expression patterns of poly(A) sites across different conditions.
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