Bstacei Brast03G127800
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 | Assembly | Species | Details
|
|---|---|---|---|---|---|---|
| Bstacei_Brast03G127800 [ Brast03G127800] |
Chr03 | 12190902 | 12198293 | v1.1 | Brachypodium stacei (Phytozome 13) | 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 | Orthologous group | Sequence | Details
|
|---|---|---|---|---|---|---|
| Bstacei_Brast03G127800.1 Brast03G127800.1 |
Low | No | 3550 | OG0007207 | Get ORF Coding potential... Type: coding Potential: 0.615 Folding energies... MFEI: -28.006 AMFE: -0.637 GC content %: 43.944 | |
| Bstacei_Brast03G127800.2 Brast03G127800.2 |
Low | No | 2545 | OG0007207 | Get ORF Coding potential... Type: coding Potential: 0.635 Folding energies... MFEI: -29.528 AMFE: -0.632 GC content %: 46.758 | |
| Bstacei_Brast03G127800.3 Brast03G127800.3 |
Low | No | 2653 | OG0007207 | Get ORF Coding potential... Type: coding Potential: 0.631 Folding energies... MFEI: -29.559 AMFE: -0.637 GC content %: 46.400 | |
| Bstacei_Brast03G127800.4 Brast03G127800.4 |
Low | No | 3206 | OG0007207 | Get ORF Coding potential... Type: coding Potential: 0.625 Folding energies... MFEI: -28.306 AMFE: -0.636 GC content %: 44.479 | |
| Bstacei_Brast03G127800.5 Brast03G127800.5 |
Low | No | 3127 | OG0007207 | Get ORF Coding potential... Type: coding Potential: 0.626 Folding energies... MFEI: -28.152 AMFE: -0.634 GC content %: 44.420 |
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 |
|---|---|---|---|---|
| Bstacei_Brast03G127800.5 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Gypsy | |
| Bstacei_Brast03G127800.1 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Gypsy | |
| Bstacei_Brast03G127800.2 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Gypsy | |
| Bstacei_Brast03G127800.3 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Gypsy | |
| Bstacei_Brast03G127800.4 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Gypsy |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
