Gene
Bdistachyon Bradi2g49770
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_Bradi2g49770 Bradi2g49770 |
Bd2 | 49568243 | 49570104 | 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_Bradi2g49770.1 Bradi2g49770.1 PAC:32772987 |
Low | No | 266 | Get ORF Coding potential... Type: noncoding Potential: -0.754 Folding energies... MFEI: -23.910 AMFE: -0.530 GC content %: 45.113 | |
| Bdistachyon_Bradi2g49770.2 Bradi2g49770.2 PAC:32772988 |
Low | No | 263 | Get ORF Coding potential... Type: noncoding Potential: -0.649 Folding energies... MFEI: -27.338 AMFE: -0.615 GC content %: 44.487 | |
| Bdistachyon_Bradi2g49770.3 Bradi2g49770.3 PAC:32772989 |
Low | No | 279 | Get ORF Coding potential... Type: noncoding Potential: -0.777 Folding energies... MFEI: -22.796 AMFE: -0.526 GC content %: 43.369 | |
| Bdistachyon_Bradi2g49770.4 Bradi2g49770.4 PAC:32772990 |
Low | No | 425 | Get ORF Coding potential... Type: noncoding Potential: -0.889 Folding energies... MFEI: -24.400 AMFE: -0.564 GC content %: 43.294 | |
| Bdistachyon_Bradi2g49770.5 Bradi2g49770.5 PAC:32772991 |
Low | No | 276 | Get ORF Coding potential... Type: noncoding Potential: -0.651 Folding energies... MFEI: -27.355 AMFE: -0.640 GC content %: 42.754 | |
| Bdistachyon_Bradi2g49770.6 Bradi2g49770.6 PAC:32772992 |
Low | No | 304 | Get ORF Coding potential... Type: noncoding Potential: -0.794 Folding energies... MFEI: -24.572 AMFE: -0.566 GC content %: 43.421 |
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_Bradi2g49770.4 | SwissProt | 2015-06-01 | Q9C9R6 | 2.0e-5 |
| Bdistachyon_Bradi2g49770.5 | SwissProt | 2015-06-01 | Q9C9R6 | 2.0e-9 |
| Bdistachyon_Bradi2g49770.6 | SwissProt | 2015-06-01 | Q9C9R6 | 1.0e-5 |
| Bdistachyon_Bradi2g49770.1 | SwissProt | 2015-06-01 | Q9C9R6 | 7.0e-7 |
| Bdistachyon_Bradi2g49770.2 | SwissProt | 2015-06-01 | Q9C9R6 | 2.0e-9 |
| Bdistachyon_Bradi2g49770.3 | SwissProt | 2015-06-01 | Q9C9R6 | 8.0e-7 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
