Gene
Taestivum Traes 1AL A40F132D6
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_1AL_A40F132D6 Traes_1AL_A40F132D6 |
ta_iwgsc_1al_v2_3919445 | 224 | 718 | 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_1AL_A40F132D6.1 Traes_1AL_A40F132D6.1 PAC:31758629 |
Low | No | 234 | Get ORF Coding potential... Type: noncoding Potential: -0.780 Folding energies... MFEI: -25.855 AMFE: -0.599 GC content %: 43.162 | |
| Taestivum_Traes_1AL_A40F132D6.2 Traes_1AL_A40F132D6.2 PAC:31758627 |
Low | No | 306 | Get ORF Coding potential... Type: noncoding Potential: -0.985 Folding energies... MFEI: -28.693 AMFE: -0.646 GC content %: 44.444 | |
| Taestivum_Traes_1AL_A40F132D6.3 Traes_1AL_A40F132D6.3 PAC:31758628 |
Low | No | 246 | Get ORF Coding potential... Type: noncoding Potential: -0.905 Folding energies... MFEI: -29.593 AMFE: -0.628 GC content %: 47.154 |
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_1AL_A40F132D6.3 | RepBase (RepeatMasker) | 2014-01-31 | HARB-3_SBi | |
| Taestivum_Traes_1AL_A40F132D6.1 | RepBase (RepeatMasker) | 2014-01-31 | HARB-1_FV | |
| Taestivum_Traes_1AL_A40F132D6.2 | RepBase (RepeatMasker) | 2014-01-31 | Harbinger1_PTr |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
