Gene
Bdistachyon Bradi1g47340
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
|
|---|---|---|---|---|---|---|---|
| Bdistachyon_Bradi1g47340 Bradi1g47340 |
Bd1 | 46006250 | 46009382 | Phytozome | v3.1 | Brachypodium_distachyon | 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
|
|---|---|---|---|---|---|
| Bdistachyon_Bradi1g47340.1 Bradi1g47340.1 PAC:32806314 |
High | No | 671 | Get ORF Coding potential... Type: noncoding Potential: -0.485 Folding energies... MFEI: -25.455 AMFE: -0.608 GC content %: 41.878 | |
| Bdistachyon_Bradi1g47340.3 Bradi1g47340.3 PAC:32806318 |
Low | No | 955 | Get ORF Coding potential... Type: noncoding Potential: -0.575 Folding energies... MFEI: -28.366 AMFE: -0.536 GC content %: 52.880 | |
| Bdistachyon_Bradi1g47340.4 Bradi1g47340.4 PAC:32806312 |
High | No | 1190 | Get ORF Coding potential... Type: noncoding Potential: -0.623 Folding energies... MFEI: -27.387 AMFE: -0.583 GC content %: 46.975 | |
| Bdistachyon_Bradi1g47340.5 Bradi1g47340.5 PAC:32806313 |
Low | No | 1370 | Get ORF Coding potential... Type: noncoding Potential: -0.650 Folding energies... MFEI: -27.197 AMFE: -0.566 GC content %: 48.029 | |
| Bdistachyon_Bradi1g47340.6 Bradi1g47340.6 PAC:32806317 |
High | No | 775 | Get ORF Coding potential... Type: noncoding Potential: -0.524 Folding energies... MFEI: -29.032 AMFE: -0.554 GC content %: 52.387 | |
| Bdistachyon_Bradi1g47340.7 Bradi1g47340.7 PAC:32806315 |
High | No | 1240 | Get ORF Coding potential... Type: noncoding Potential: -0.631 Folding energies... MFEI: -25.315 AMFE: -0.556 GC content %: 45.565 | |
| Bdistachyon_Bradi1g47340.8 Bradi1g47340.8 PAC:32806311 |
High | No | 1496 | Get ORF Coding potential... Type: noncoding Potential: -0.665 Folding energies... MFEI: -24.886 AMFE: -0.650 GC content %: 38.302 | |
| Bdistachyon_Bradi1g47340.9 Bradi1g47340.9 PAC:32806316 |
High | No | 1078 | Get ORF Coding potential... Type: noncoding Potential: -0.602 Folding energies... MFEI: -24.954 AMFE: -0.629 GC content %: 39.703 |
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 |
|---|---|---|---|---|
| Bdistachyon_Bradi1g47340.5 | RepBase (RepeatMasker) | 2014-01-31 | hAT2_SB | |
| Bdistachyon_Bradi1g47340.3 | RepBase (RepeatMasker) | 2014-01-31 | hAT2_SB |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
