Gene
Taestivum Traes 4AL FD29FB002
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_FD29FB002 Traes_4AL_FD29FB002 |
ta_iwgsc_4al_v2_7162323 | 1249 | 9870 | 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_4AL_FD29FB002.10 Traes_4AL_FD29FB002.10 PAC:31736126 |
Low | No | 432 | Get ORF Coding potential... Type: noncoding Potential: -0.836 Folding energies... MFEI: -21.343 AMFE: -0.498 GC content %: 42.824 | |
| Taestivum_Traes_4AL_FD29FB002.8 Traes_4AL_FD29FB002.8 PAC:31736124 |
Low | No | 356 | Get ORF Coding potential... Type: noncoding Potential: -0.866 Folding energies... MFEI: -18.764 AMFE: -0.488 GC content %: 38.483 | |
| Taestivum_Traes_4AL_FD29FB002.9 Traes_4AL_FD29FB002.9 PAC:31736125 |
Low | No | 375 | Get ORF Coding potential... Type: noncoding Potential: -0.834 Folding energies... MFEI: -20.587 AMFE: -0.486 GC content %: 42.400 |
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_FD29FB002.10 | RepBase (RepeatMasker) | 2014-01-31 | Helitron-1B_SBi | |
| Taestivum_Traes_4AL_FD29FB002.8 | RepBase (RepeatMasker) | 2014-01-31 | HELITRON4_OS | |
| Taestivum_Traes_4AL_FD29FB002.9 | RepBase (RepeatMasker) | 2014-01-31 | Helitron-2_SBi |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
