Schema for tRNA Genes - Transfer RNA Genes Identified by tRNAscan-SE 2.0 |
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Database: DnavGB1 Primary Table: tRNAscanSE2Details Data last updated: 2019-07-06
Big Bed File: /gbdb/DnavGB1/bbi/DnavGB1.tRNAscanSE2Details.bb
Item Count: 211
Format description: tRNAs identified by tRNAscan-SE 2.0
| field | example | description |
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| chrom | LSRL01000001 | Reference sequence chromosome or scaffold | | chromStart | 642858 | Start position in chromosome | | chromEnd | 642929 | End position in chromosome | | name | tRNA-Gly-GCC-LSRL01000001-9 | Short Name of item | | score | 1000 | Score from 0-1000 | | strand | - | + or - | | thickStart | 642858 | Start of where display should be thick (start codon) | | thickEnd | 642929 | 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 | 71 | Comma separated list of block sizes | | chromStarts | 0 | Start positions relative to chromStart | | tRNAType | Gly | tRNA type | | antiCodon | GCC | Anticodon | | trnaScore | 80.1 | Infernal Score | | hmmScore | 59.20 | Primary structure-only (HMM) score | | str2Score | 20.90 | Secondary structure-only score | | isotypeCM | Gly | Isotype covariance model | | isotypeScore | 108.6 | Isotype score | | notes | high confidence set | 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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| LSRL01000001 | 642858 | 642929 | tRNA-Gly-GCC-LSRL01000001-9 | 1000 | - | 642858 | 642929 | 0,0,0 | 1 | 71 | 0 | Gly | GCC | 80.1 | 59.20 | 20.90 | Gly | 108.6 | high confidence set |
| LSRL01000001 | 974535 | 974608 | tRNA-Phe-GAA-LSRL01000001-8 | 1000 | - | 974535 | 974608 | 0,0,0 | 1 | 73 | 0 | Phe | GAA | 88.0 | 66.50 | 21.50 | Phe | 123.3 | high confidence set |
| LSRL01000001 | 976372 | 976445 | tRNA-Phe-GAA-LSRL01000001-7 | 1000 | - | 976372 | 976445 | 0,0,0 | 1 | 73 | 0 | Phe | GAA | 82.5 | 61.00 | 21.50 | Phe | 116.5 | high confidence set |
| LSRL01000001 | 7941738 | 7941820 | tRNA-Ser-AGA-LSRL01000001-6 | 1000 | - | 7941738 | 7941820 | 0,0,0 | 1 | 82 | 0 | Ser | AGA | 87.4 | 53.50 | 33.90 | Ser | 118.8 | high confidence set |
| LSRL01000001 | 8846233 | 8846306 | tRNA-Arg-CCT-LSRL01000001-1 | 1000 | + | 8846233 | 8846306 | 0,0,0 | 1 | 73 | 0 | Arg | CCT | 66.5 | 52.10 | 14.40 | Arg | 98.1 | high confidence set |
| LSRL01000001 | 13289866 | 13289938 | tRNA-Pro-CGG-LSRL01000001-5 | 1000 | - | 13289866 | 13289938 | 0,0,0 | 1 | 72 | 0 | Pro | CGG | 72.0 | 45.60 | 26.40 | Pro | 116.5 | high confidence set |
| LSRL01000001 | 13290197 | 13290269 | tRNA-Thr-CGT-LSRL01000001-2 | 1000 | + | 13290197 | 13290269 | 0,0,0 | 1 | 72 | 0 | Thr | CGT | 73.9 | 49.10 | 24.80 | Thr | 91.0 | high confidence set |
| LSRL01000001 | 19029008 | 19029080 | tRNA-Gly-TCC-LSRL01000001-4 | 1000 | - | 19029008 | 19029080 | 0,0,0 | 1 | 72 | 0 | Gly | TCC | 70.6 | 47.90 | 22.70 | Gly | 98.4 | high confidence set |
| LSRL01000001 | 20368456 | 20368528 | tRNA-Pro-AGG-LSRL01000001-3 | 1000 | + | 20368456 | 20368528 | 0,0,0 | 1 | 72 | 0 | Pro | AGG | 68.0 | 43.60 | 24.40 | Pro | 112.3 | high confidence set |
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tRNA Genes (tRNAscanSE2Details) Track Description
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