Gene
Taestivum Traes 4AL 58FD04B85
From GreeNC
This table contains information about coordinates, assembly and annotation regarding the lncRNA-transcribing gene. In details, it shows whether this this gene transcribes any protein-coding transcript.
| Gene alias / name | Chrom. | Start | End | Source | Assembly | Species | Details
|
|---|---|---|---|---|---|---|---|
| Taestivum_Traes_4AL_58FD04B85 Traes_4AL_58FD04B85 |
ta_iwgsc_4al_v2_7134382 | 2787 | 6924 | Phytozome | v2.2 | Triticum_aestivum | Coding? No |
This table shows how a lncRNA has been classified (high/low confidence) or whether it has been classified as pre-miRNA (go to FAQ for classification criteria). Besides, it displays the lncRNA length and sequence as well as information about the ORF, the coding potential calculated by the Coding Potential Calculator (CPC), and the folding energies calculated by RNAfold.
| Transcript alias / name | Confidence | Pre-miRNA | Length | Sequence | Details
|
|---|---|---|---|---|---|
| Taestivum_Traes_4AL_58FD04B85.1 Traes_4AL_58FD04B85.1 PAC:31987544 |
Low | No | 1765 | Get ORF Coding potential... Type: noncoding Potential: -1.035 Folding energies... MFEI: -31.569 AMFE: -0.656 GC content %: 48.102 | |
| Taestivum_Traes_4AL_58FD04B85.2 Traes_4AL_58FD04B85.2 PAC:31987543 |
Low | No | 1358 | Get ORF Coding potential... Type: noncoding Potential: -1.012 Folding energies... MFEI: -33.063 AMFE: -0.639 GC content %: 51.767 | |
| Taestivum_Traes_4AL_58FD04B85.3 Traes_4AL_58FD04B85.3 PAC:31987545 |
Low | No | 1379 | Get ORF Coding potential... Type: noncoding Potential: -1.014 Folding energies... MFEI: -34.054 AMFE: -0.661 GC content %: 51.487 | |
| Taestivum_Traes_4AL_58FD04B85.4 Traes_4AL_58FD04B85.4 PAC:31987546 |
Low | No | 1600 | Get ORF Coding potential... Type: noncoding Potential: -1.027 Folding energies... MFEI: -32.069 AMFE: -0.652 GC content %: 49.188 | |
| Taestivum_Traes_4AL_58FD04B85.5 Traes_4AL_58FD04B85.5 PAC:31987547 |
Low | No | 2579 | Get ORF Coding potential... Type: noncoding Potential: -1.062 Folding energies... MFEI: -29.042 AMFE: -0.656 GC content %: 44.242 | |
| Taestivum_Traes_4AL_58FD04B85.6 Traes_4AL_58FD04B85.6 PAC:31987548 |
High | No | 998 | Get ORF Coding potential... Type: noncoding Potential: -1.068 Folding energies... MFEI: -33.026 AMFE: -0.633 GC content %: 52.204 | |
| Taestivum_Traes_4AL_58FD04B85.7 Traes_4AL_58FD04B85.7 PAC:31987549 |
Low | No | 1432 | Get ORF Coding potential... Type: noncoding Potential: -1.017 Folding energies... MFEI: -32.640 AMFE: -0.638 GC content %: 51.187 | |
| Taestivum_Traes_4AL_58FD04B85.8 Traes_4AL_58FD04B85.8 PAC:31987550 |
Low | No | 1678 | Get ORF Coding potential... Type: noncoding Potential: -1.031 Folding energies... MFEI: -31.776 AMFE: -0.645 GC content %: 49.285 |
The lncRNAs from GreeNC have been analysed against the following databases: SwissProt, miRBase, Rfam, RepBase (RepeatMasker), NONCODE, and lncRNAdb. This table displays any association with these databases.
| Transcript alias | Database | Version | Hit | Evalue |
|---|---|---|---|---|
| Taestivum_Traes_4AL_58FD04B85.4 | RepBase (RepeatMasker) | 2014-01-31 | Gypsy-203_ZM-I | |
| Taestivum_Traes_4AL_58FD04B85.5 | RepBase (RepeatMasker) | 2014-01-31 | LATIDU1_TM | |
| Taestivum_Traes_4AL_58FD04B85.7 | RepBase (RepeatMasker) | 2014-01-31 | Gypsy-203_ZM-I | |
| Taestivum_Traes_4AL_58FD04B85.1 | RepBase (RepeatMasker) | 2014-01-31 | Gypsy-203_ZM-I | |
| Taestivum_Traes_4AL_58FD04B85.8 | RepBase (RepeatMasker) | 2014-01-31 | Gypsy-203_ZM-I | |
| Taestivum_Traes_4AL_58FD04B85.2 | RepBase (RepeatMasker) | 2014-01-31 | Gypsy-203_ZM-I | |
| Taestivum_Traes_4AL_58FD04B85.3 | RepBase (RepeatMasker) | 2014-01-31 | Gypsy-203_ZM-I |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
