Schema for tRNA Genes - Transfer RNA Genes Identified by tRNAscan-SE 2.0 |
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Database: DmirGB2 Primary Table: tRNAscanSE2Details Data last updated: 2019-07-06
Big Bed File: /gbdb/DmirGB2/bbi/DmirGB2.tRNAscanSE2Details.bb
Item Count: 294
Format description: tRNAs identified by tRNAscan-SE 2.0
| field | example | description |
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| chrom | CM001516 | Reference sequence chromosome or scaffold | | chromStart | 13137692 | Start position in chromosome | | chromEnd | 13137766 | End position in chromosome | | name | tRNA-Glu-CTC-CM001516-9 | Short Name of item | | score | 1000 | Score from 0-1000 | | strand | + | + or - | | thickStart | 13137692 | Start of where display should be thick (start codon) | | thickEnd | 13137766 | End of where display should be thick (stop codon) | | reserved | 0,0,0 | Used as itemRgb as of 2004-11-22 | | blockCount | 1 | Number of blocks | | blockSizes | 74 | Comma separated list of block sizes | | chromStarts | 0 | Start positions relative to chromStart | | tRNAType | Glu | tRNA type | | antiCodon | CTC | Anticodon | | trnaScore | 21.6 | Infernal Score | | hmmScore | 23.80 | Primary structure-only (HMM) score | | str2Score | -2.20 | Secondary structure-only score | | isotypeCM | Cys | Isotype covariance model | | isotypeScore | 3.3 | Isotype score | | notes | pseudo,IPD:-3.30 | EukHighConfidenceFilter notes |
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Sample Rows
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| chrom | chromStart | chromEnd | name | score | strand | thickStart | thickEnd | reserved | blockCount | blockSizes | chromStarts | tRNAType | antiCodon | trnaScore | hmmScore | str2Score | isotypeCM | isotypeScore | notes |
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| CM001516 | 13137692 | 13137766 | tRNA-Glu-CTC-CM001516-9 | 1000 | + | 13137692 | 13137766 | 0,0,0 | 1 | 74 | 0 | Glu | CTC | 21.6 | 23.80 | -2.20 | Cys | 3.3 | pseudo,IPD:-3.30 |
| CM001516 | 13146325 | 13146399 | tRNA-Glu-CTC-CM001516-27 | 1000 | - | 13146325 | 13146399 | 0,0,0 | 1 | 74 | 0 | Glu | CTC | 21.6 | 23.80 | -2.20 | Cys | 3.3 | pseudo,IPD:-3.30 |
| CM001516 | 13147536 | 13147611 | tRNA-Glu-CTC-CM001516-26 | 1000 | - | 13147536 | 13147611 | 0,0,0 | 1 | 75 | 0 | Glu | CTC | 22.5 | 24.30 | -1.80 | Cys | 3.0 | pseudo,IPD:-3.00 |
| CM001516 | 14002525 | 14002597 | tRNA-Glu-CTC-CM001516-10 | 1000 | + | 14002525 | 14002597 | 0,0,0 | 1 | 72 | 0 | Glu | CTC | 72.7 | 47.40 | 25.30 | Glu | 105.6 | high confidence set |
| CM001516 | 14002798 | 14002870 | tRNA-Glu-TTC-CM001516-11 | 1000 | + | 14002798 | 14002870 | 0,0,0 | 1 | 72 | 0 | Glu | TTC | 77.0 | 52.10 | 24.90 | Glu | 112.6 | high confidence set |
| CM001516 | 15798011 | 15798082 | tRNA-Gly-CCC-CM001516-25 | 1000 | - | 15798011 | 15798082 | 0,0,0 | 1 | 71 | 0 | Gly | CCC | 74.7 | 51.90 | 22.80 | Gly | 92.4 | high confidence set |
| CM001516 | 15799649 | 15799720 | tRNA-Gly-CCC-CM001516-24 | 1000 | - | 15799649 | 15799720 | 0,0,0 | 1 | 71 | 0 | Gly | CCC | 84.1 | 59.80 | 24.30 | Gly | 103.2 | high confidence set |
| CM001516 | 15849898 | 15849969 | tRNA-Gly-CCC-CM001516-12 | 1000 | + | 15849898 | 15849969 | 0,0,0 | 1 | 71 | 0 | Gly | CCC | 81.7 | 57.30 | 24.40 | Gly | 98.9 | high confidence set |
| CM001516 | 17800394 | 17800467 | tRNA-Phe-GAA-CM001516-23 | 1000 | - | 17800394 | 17800467 | 0,0,0 | 1 | 73 | 0 | Phe | GAA | 88.0 | 66.50 | 21.50 | Phe | 123.3 | high confidence set |
| CM001516 | 18874285 | 18874357 | tRNA-Gln-TTG-CM001516-22 | 1000 | - | 18874285 | 18874357 | 0,0,0 | 1 | 72 | 0 | Gln | TTG | 70.8 | 43.00 | 27.80 | Gln | 111.4 | high confidence set |
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tRNA Genes (tRNAscanSE2Details) Track Description
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