PltRNAdb: Plant transfer RNA database.
Transfer RNAs (tRNAs) are intermediate-sized non-coding RNAs found in all organisms that help translate messenger RNA into protein. Recently, the number of sequenced plant genomes has increased dramatically. The availability of this extensive data greatly accelerates the study of tRNAs on a large sc...
| Main Authors: | , |
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| Format: | Article |
| Language: | English |
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Public Library of Science (PLoS)
2022-01-01
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| Series: | PLoS ONE |
| Online Access: | https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0268904&type=printable |
| _version_ | 1826545812719534080 |
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| author | Morad M Mokhtar Achraf El Allali |
| author_facet | Morad M Mokhtar Achraf El Allali |
| author_sort | Morad M Mokhtar |
| collection | DOAJ |
| description | Transfer RNAs (tRNAs) are intermediate-sized non-coding RNAs found in all organisms that help translate messenger RNA into protein. Recently, the number of sequenced plant genomes has increased dramatically. The availability of this extensive data greatly accelerates the study of tRNAs on a large scale. Here, 8,768,261 scaffolds/chromosomes containing 229,093 giga-base pairs representing whole-genome sequences of 256 plant species were analyzed to identify tRNA genes. As a result, 331,242 nuclear, 3,216 chloroplast, and 1,467 mitochondrial tRNA genes were identified. The nuclear tRNA genes include 275,134 tRNAs decoding 20 standard amino acids, 1,325 suppressor tRNAs, 6,273 tRNAs with unknown isotypes, 48,475 predicted pseudogenes, and 37,873 tRNAs with introns. Efforts also extended to the creation of PltRNAdb (https://bioinformatics.um6p.ma/PltRNAdb/index.php), a data source for tRNA genes from 256 plant species. PltRNAdb website allows researchers to search, browse, visualize, BLAST, and download predicted tRNA genes. PltRNAdb will help improve our understanding of plant tRNAs and open the door to discovering the unknown regulatory roles of tRNAs in plant genomes. |
| first_indexed | 2024-04-13T04:13:40Z |
| format | Article |
| id | doaj.art-c959204ea49e45539395148a62e9d9fe |
| institution | Directory Open Access Journal |
| issn | 1932-6203 |
| language | English |
| last_indexed | 2025-03-14T05:23:49Z |
| publishDate | 2022-01-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS ONE |
| spelling | doaj.art-c959204ea49e45539395148a62e9d9fe2025-03-06T05:32:00ZengPublic Library of Science (PLoS)PLoS ONE1932-62032022-01-01175e026890410.1371/journal.pone.0268904PltRNAdb: Plant transfer RNA database.Morad M MokhtarAchraf El AllaliTransfer RNAs (tRNAs) are intermediate-sized non-coding RNAs found in all organisms that help translate messenger RNA into protein. Recently, the number of sequenced plant genomes has increased dramatically. The availability of this extensive data greatly accelerates the study of tRNAs on a large scale. Here, 8,768,261 scaffolds/chromosomes containing 229,093 giga-base pairs representing whole-genome sequences of 256 plant species were analyzed to identify tRNA genes. As a result, 331,242 nuclear, 3,216 chloroplast, and 1,467 mitochondrial tRNA genes were identified. The nuclear tRNA genes include 275,134 tRNAs decoding 20 standard amino acids, 1,325 suppressor tRNAs, 6,273 tRNAs with unknown isotypes, 48,475 predicted pseudogenes, and 37,873 tRNAs with introns. Efforts also extended to the creation of PltRNAdb (https://bioinformatics.um6p.ma/PltRNAdb/index.php), a data source for tRNA genes from 256 plant species. PltRNAdb website allows researchers to search, browse, visualize, BLAST, and download predicted tRNA genes. PltRNAdb will help improve our understanding of plant tRNAs and open the door to discovering the unknown regulatory roles of tRNAs in plant genomes.https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0268904&type=printable |
| spellingShingle | Morad M Mokhtar Achraf El Allali PltRNAdb: Plant transfer RNA database. PLoS ONE |
| title | PltRNAdb: Plant transfer RNA database. |
| title_full | PltRNAdb: Plant transfer RNA database. |
| title_fullStr | PltRNAdb: Plant transfer RNA database. |
| title_full_unstemmed | PltRNAdb: Plant transfer RNA database. |
| title_short | PltRNAdb: Plant transfer RNA database. |
| title_sort | pltrnadb plant transfer rna database |
| url | https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0268904&type=printable |
| work_keys_str_mv | AT moradmmokhtar pltrnadbplanttransferrnadatabase AT achrafelallali pltrnadbplanttransferrnadatabase |