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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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GtRNAdb - Genomic tRNA Database Resource Report Resource Website 100+ mentions |
GtRNAdb - Genomic tRNA Database (RRID:SCR_006939) | GtRNAdb | analysis service resource, data analysis service, data or information resource, database, production service resource, service resource | This genomic tRNA database contains tRNA gene predictions made by the program tRNAscan-SE (Lowe & Eddy, Nucl Acids Res 25: 955-964, 1997) on complete or nearly complete genomes. Unless otherwise noted, all annotation is automated, and has not been inspected for agreement with published literature. Transfer RNAs (tRNAs) represent the single largest, best-understood class of non-protein coding RNA genes found in all living organisms. By far, the major source of new tRNAs is computational identification of genes within newly sequenced genomes. To organize the rapidly growing collection and enable systematic analyses, we created the Genomic tRNA Database (GtRNAdb). The web resource provides overview statistics of tRNA genes within each analyzed genome, including information by isotype and genetic locus, easily downloadable primary sequences, graphical secondary structures and multiple sequence alignments. Direct links for each gene to UCSC eukaryotic and microbial genome browsers provide graphical display of tRNA genes in the context of all other local genetic information. The database can be searched by primary sequence similarity, tRNA characteristics or phylogenetic group. Inevitably with automated sequence analysis, we find exceptions to general identification rules, isoacceptor type predictions (esp. due to variable post-transcriptional anticodon modification), and questionable tRNA identifications (due to pseudogenes, SINES, or other tRNA-derived elements). We attempt to document all cases we come across, and welcome feedback on new or unrecognized discrepancies. | trna, trna gene prediction, genome, gene, isotype, genetic locus, blast, secondary structure, sequence alignment, fasta, seq, eukaryotic, microbial, primary sequence, phylogenetic group, FASEB list | has parent organization: University of California at Santa Cruz; California; USA | Hewlett-Packard | PMID:18984615 | nif-0000-02932 | SCR_006939 | Genomic tRNA Database | 2026-08-21 12:38:16 | 381 | ||||||
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University of California at Santa Cruz; California; USA Resource Report Resource Website 10+ mentions |
University of California at Santa Cruz; California; USA (RRID:SCR_011624) | UCSC | university | Public research university in Santa Cruz, California. It is one of 10 campuses in the University of California system. |
is related to: Structure Harvester has parent organization: University of California; California; USA is parent organization of: BISC is parent organization of: Spliceosome Database is parent organization of: Cancer Genomics Hub is parent organization of: In-Silico PCR is parent organization of: VisiGene Image Browser is parent organization of: NanoStriDE is parent organization of: UCSC Genome Browser is parent organization of: ENCODE is parent organization of: GtRNAdb - Genomic tRNA Database is parent organization of: Yeast Intron Database is parent organization of: BigWig and BigBed is parent organization of: The Intronerator is parent organization of: EyeBrowse is parent organization of: tRNAscan-SE is parent organization of: tRNAscan-SE is parent organization of: UCSC Cancer Genomics Browser is parent organization of: BLAT is parent organization of: University of California Santa Cruz Labs and Facilities is parent organization of: Pecan is parent organization of: Consensus CDS is parent organization of: GenomeSpace is parent organization of: Encode is parent organization of: liftOver is parent organization of: XRNA is parent organization of: UCSC Xena is parent organization of: University of California, Santa Cruz Chemical Screening Center Core Facility is parent organization of: University of California at Santa Cruz Life Sciences Microscopy Center Core Facility is parent organization of: University of California, Santa Cruz IBSC Flow Cytometry Core Facility is parent organization of: University of California Santa Cruz Macromolecular Structure Function Core Facility is parent organization of: University of California at Santa Cruz Institute for Biology of Stem Cells Cell Culture Core Facility is parent organization of: University of California Santa Cruz Banana Slug Genomics Center Core Facility is parent organization of: University of California at Santa Cruz Biomolecular Cryo Electron Microscopy Core Facility is parent organization of: University of California at Santa Cruz Plasma Analytical Laboratory Core Facility is parent organization of: University of California at Santa Cruz Marine Analytical Laboratory Core Facility is parent organization of: University of California at Santa Cruz Stable Isotope Laboratory Core Facility is parent organization of: UCSC Cell Browser is parent organization of: miRCode is parent organization of: tRNA Analysis of eXpression |
nlx_63906, Wikidata:Q1047293, Crossref funder ID:100006358, grid.205975.c, ISNI:0000 0001 0740 6917 | https://ror.org/03s65by71 | SCR_011624 | UCSC | 2026-08-15 11:24:34 | 34 |
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