Gene
Bdistachyon Bradi2g03550
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_Bradi2g03550 Bradi2g03550 |
Bd2 | 2585550 | 2591663 | 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_Bradi2g03550.10 Bradi2g03550.10 PAC:32780114 |
Low | Yes | 1219 | Get ORF Coding potential... Type: noncoding Potential: -0.653 Folding energies... MFEI: -33.191 AMFE: -0.622 GC content %: 53.404 | |
| Bdistachyon_Bradi2g03550.11 Bradi2g03550.11 PAC:32780115 |
Low | Yes | 1306 | Get ORF Coding potential... Type: noncoding Potential: -0.599 Folding energies... MFEI: -32.833 AMFE: -0.622 GC content %: 52.757 | |
| Bdistachyon_Bradi2g03550.2 Bradi2g03550.2 PAC:32780110 |
Low | Yes | 1391 | Get ORF Coding potential... Type: noncoding Potential: -0.674 Folding energies... MFEI: -32.646 AMFE: -0.627 GC content %: 52.049 | |
| Bdistachyon_Bradi2g03550.5 Bradi2g03550.5 PAC:32780108 |
High | No | 1791 | Get ORF Coding potential... Type: noncoding Potential: -0.748 Folding energies... MFEI: -28.425 AMFE: -0.615 GC content %: 46.231 | |
| Bdistachyon_Bradi2g03550.6 Bradi2g03550.6 PAC:32780109 |
High | No | 1362 | Get ORF Coding potential... Type: noncoding Potential: -0.702 Folding energies... MFEI: -32.423 AMFE: -0.607 GC content %: 53.377 | |
| Bdistachyon_Bradi2g03550.7 Bradi2g03550.7 PAC:32780111 |
High | No | 1658 | Get ORF Coding potential... Type: noncoding Potential: -0.700 Folding energies... MFEI: -27.437 AMFE: -0.601 GC content %: 45.657 | |
| Bdistachyon_Bradi2g03550.8 Bradi2g03550.8 PAC:32780112 |
Low | Yes | 1325 | Get ORF Coding potential... Type: noncoding Potential: -0.667 Folding energies... MFEI: -32.558 AMFE: -0.625 GC content %: 52.075 | |
| Bdistachyon_Bradi2g03550.9 Bradi2g03550.9 PAC:32780113 |
Low | Yes | 1301 | Get ORF Coding potential... Type: noncoding Potential: -0.664 Folding energies... MFEI: -32.929 AMFE: -0.626 GC content %: 52.575 |
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_Bradi2g03550.2 | Rfam | 11.0 | MIR1122 | 6.1e-7 |
| Bdistachyon_Bradi2g03550.8 | Rfam | 11.0 | MIR1122 | 5.8e-7 |
| Bdistachyon_Bradi2g03550.9 | Rfam | 11.0 | MIR1122 | 5.7e-7 |
| Bdistachyon_Bradi2g03550.2 | RepBase (RepeatMasker) | 2014-01-31 | TREP216 | |
| Bdistachyon_Bradi2g03550.10 | Rfam | 11.0 | MIR1122 | 2.1e-5 |
| Bdistachyon_Bradi2g03550.8 | RepBase (RepeatMasker) | 2014-01-31 | TREP216 | |
| Bdistachyon_Bradi2g03550.11 | Rfam | 11.0 | MIR1122 | 8.1e-5 |
| Bdistachyon_Bradi2g03550.9 | RepBase (RepeatMasker) | 2014-01-31 | TREP216 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
