Gene
Taestivum Traes 5AL F4A6D8574
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_5AL_F4A6D8574 Traes_5AL_F4A6D8574 |
ta_iwgsc_5al_v1_2706001 | 1353 | 3970 | 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_5AL_F4A6D8574.1 Traes_5AL_F4A6D8574.1 PAC:31876848 |
Low | No | 1425 | Get ORF Coding potential... Type: noncoding Potential: -0.561 Folding energies... MFEI: -26.870 AMFE: -0.631 GC content %: 42.596 | |
| Taestivum_Traes_5AL_F4A6D8574.10 Traes_5AL_F4A6D8574.10 PAC:31876849 |
Low | No | 1396 | Get ORF Coding potential... Type: noncoding Potential: -0.337 Folding energies... MFEI: -27.521 AMFE: -0.639 GC content %: 43.052 | |
| Taestivum_Traes_5AL_F4A6D8574.11 Traes_5AL_F4A6D8574.11 PAC:31876847 |
Low | No | 2482 | Get ORF Coding potential... Type: noncoding Potential: -1.179 Folding energies... MFEI: -28.904 AMFE: -0.664 GC content %: 43.513 | |
| Taestivum_Traes_5AL_F4A6D8574.2 Traes_5AL_F4A6D8574.2 PAC:31876841 |
Low | No | 1790 | Get ORF Coding potential... Type: noncoding Potential: -1.022 Folding energies... MFEI: -30.486 AMFE: -0.662 GC content %: 46.034 | |
| Taestivum_Traes_5AL_F4A6D8574.3 Traes_5AL_F4A6D8574.3 PAC:31876840 |
Low | No | 1387 | Get ORF Coding potential... Type: noncoding Potential: -0.472 Folding energies... MFEI: -32.624 AMFE: -0.669 GC content %: 48.738 | |
| Taestivum_Traes_5AL_F4A6D8574.5 Traes_5AL_F4A6D8574.5 PAC:31876842 |
Low | No | 1534 | Get ORF Coding potential... Type: noncoding Potential: -1.132 Folding energies... MFEI: -32.568 AMFE: -0.674 GC content %: 48.305 | |
| Taestivum_Traes_5AL_F4A6D8574.6 Traes_5AL_F4A6D8574.6 PAC:31876843 |
Low | No | 1216 | Get ORF Coding potential... Type: noncoding Potential: -0.310 Folding energies... MFEI: -29.910 AMFE: -0.665 GC content %: 44.984 | |
| Taestivum_Traes_5AL_F4A6D8574.7 Traes_5AL_F4A6D8574.7 PAC:31876844 |
High | No | 1106 | Get ORF Coding potential... Type: noncoding Potential: -1.114 Folding energies... MFEI: -24.873 AMFE: -0.593 GC content %: 41.953 | |
| Taestivum_Traes_5AL_F4A6D8574.8 Traes_5AL_F4A6D8574.8 PAC:31876845 |
Low | No | 1008 | Get ORF Coding potential... Type: noncoding Potential: -0.522 Folding energies... MFEI: -29.821 AMFE: -0.644 GC content %: 46.329 | |
| Taestivum_Traes_5AL_F4A6D8574.9 Traes_5AL_F4A6D8574.9 PAC:31876846 |
Low | No | 1113 | Get ORF Coding potential... Type: noncoding Potential: -0.399 Folding energies... MFEI: -29.901 AMFE: -0.662 GC content %: 45.193 |
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_5AL_F4A6D8574.11 | RepBase (RepeatMasker) | 2014-01-31 | HELMET3 | |
| Taestivum_Traes_5AL_F4A6D8574.5 | RepBase (RepeatMasker) | 2014-01-31 | HELMET3 | |
| Taestivum_Traes_5AL_F4A6D8574.6 | RepBase (RepeatMasker) | 2014-01-31 | HELMET3 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
