Gene
Bdistachyon Bradi5g03761
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_Bradi5g03761 Bradi5g03761 |
Bd5 | 4756266 | 4761953 | 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_Bradi5g03761.1 Bradi5g03761.1 PAC:32811792 |
Low | Yes | 3920 | Get ORF Coding potential... Type: noncoding Potential: -1.162 Folding energies... MFEI: -29.750 AMFE: -0.669 GC content %: 44.490 | |
| Bdistachyon_Bradi5g03761.2 Bradi5g03761.2 PAC:32811797 |
High | No | 1753 | Get ORF Coding potential... Type: noncoding Potential: -1.120 Folding energies... MFEI: -33.063 AMFE: -0.604 GC content %: 54.706 | |
| Bdistachyon_Bradi5g03761.3 Bradi5g03761.3 PAC:32811798 |
High | No | 1003 | Get ORF Coding potential... Type: noncoding Potential: -1.069 Folding energies... MFEI: -36.132 AMFE: -0.623 GC content %: 58.026 | |
| Bdistachyon_Bradi5g03761.4 Bradi5g03761.4 PAC:32811793 |
High | No | 1766 | Get ORF Coding potential... Type: noncoding Potential: -1.120 Folding energies... MFEI: -32.814 AMFE: -0.599 GC content %: 54.813 | |
| Bdistachyon_Bradi5g03761.5 Bradi5g03761.5 PAC:32811794 |
High | No | 1724 | Get ORF Coding potential... Type: noncoding Potential: -1.118 Folding energies... MFEI: -33.208 AMFE: -0.603 GC content %: 55.104 | |
| Bdistachyon_Bradi5g03761.6 Bradi5g03761.6 PAC:32811795 |
High | No | 1884 | Get ORF Coding potential... Type: noncoding Potential: -1.125 Folding energies... MFEI: -32.378 AMFE: -0.602 GC content %: 53.769 | |
| Bdistachyon_Bradi5g03761.7 Bradi5g03761.7 PAC:32811796 |
High | No | 1822 | Get ORF Coding potential... Type: noncoding Potential: -1.122 Folding energies... MFEI: -32.953 AMFE: -0.607 GC content %: 54.281 |
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_Bradi5g03761.1 | RepBase (RepeatMasker) | 2014-01-31 | Helitron-2_SBi | |
| Bdistachyon_Bradi5g03761.1 | Rfam | 11.0 | MIR1122 | 8.0e-8 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
