Gene
Taestivum Traes 7DS EF953E374
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_7DS_EF953E374 Traes_7DS_EF953E374 |
ta_iwgsc_7ds_v1_2388296 | 1874 | 5493 | Phytozome | v2.2 | Triticum_aestivum | Coding? Yes |
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_7DS_EF953E374.10 Traes_7DS_EF953E374.10 PAC:31966506 |
Low | No | 1553 | Get ORF Coding potential... Type: noncoding Potential: -0.983 Folding energies... MFEI: -28.738 AMFE: -0.629 GC content %: 45.654 | |
| Taestivum_Traes_7DS_EF953E374.12 Traes_7DS_EF953E374.12 PAC:31966508 |
Low | No | 1004 | Get ORF Coding potential... Type: noncoding Potential: -0.845 Folding energies... MFEI: -26.763 AMFE: -0.657 GC content %: 40.737 | |
| Taestivum_Traes_7DS_EF953E374.13 Traes_7DS_EF953E374.13 PAC:31966509 |
Low | No | 1521 | Get ORF Coding potential... Type: noncoding Potential: -1.030 Folding energies... MFEI: -27.127 AMFE: -0.669 GC content %: 40.565 | |
| Taestivum_Traes_7DS_EF953E374.14 Traes_7DS_EF953E374.14 PAC:31966510 |
Low | No | 728 | Get ORF Coding potential... Type: noncoding Potential: -0.939 Folding energies... MFEI: -26.992 AMFE: -0.651 GC content %: 41.484 | |
| Taestivum_Traes_7DS_EF953E374.15 Traes_7DS_EF953E374.15 PAC:31966511 |
Low | No | 1438 | Get ORF Coding potential... Type: noncoding Potential: -1.024 Folding energies... MFEI: -27.524 AMFE: -0.666 GC content %: 41.307 | |
| Taestivum_Traes_7DS_EF953E374.16 Traes_7DS_EF953E374.16 PAC:31966512 |
High | No | 381 | Get ORF Coding potential... Type: noncoding Potential: -1.319 Folding energies... MFEI: -24.934 AMFE: -0.621 GC content %: 40.157 | |
| Taestivum_Traes_7DS_EF953E374.17 Traes_7DS_EF953E374.17 PAC:31966513 |
Low | No | 838 | Get ORF Coding potential... Type: noncoding Potential: -1.110 Folding energies... MFEI: -25.764 AMFE: -0.646 GC content %: 39.857 | |
| Taestivum_Traes_7DS_EF953E374.4 Traes_7DS_EF953E374.4 PAC:31966500 |
Low | No | 1269 | Get ORF Coding potential... Type: noncoding Potential: -0.674 Folding energies... MFEI: -27.620 AMFE: -0.654 GC content %: 42.238 | |
| Taestivum_Traes_7DS_EF953E374.6 Traes_7DS_EF953E374.6 PAC:31966502 |
Low | No | 1165 | Get ORF Coding potential... Type: noncoding Potential: -0.791 Folding energies... MFEI: -28.446 AMFE: -0.664 GC content %: 42.833 | |
| Taestivum_Traes_7DS_EF953E374.9 Traes_7DS_EF953E374.9 PAC:31966505 |
Low | No | 560 | Get ORF Coding potential... Type: noncoding Potential: -0.853 Folding energies... MFEI: -26.554 AMFE: -0.630 GC content %: 42.143 |
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_7DS_EF953E374.10 | RepBase (RepeatMasker) | 2014-01-31 | Gypsy-31_BD-LTR | |
| Taestivum_Traes_7DS_EF953E374.17 | RepBase (RepeatMasker) | 2014-01-31 | Copia-11_BD-LTR | |
| Taestivum_Traes_7DS_EF953E374.9 | RepBase (RepeatMasker) | 2014-01-31 | Copia-11_BD-LTR |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
