Gbarbadense Gobar.D08G205200
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
|
|---|---|---|---|---|---|---|
| Gbarbadense_Gobar.D08G205200 [ Gobar.D08G205200] |
D08 | 55037491 | 55040605 | v1.1 | Gossypium barbadense (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
|
|---|---|---|---|---|---|---|
| Gbarbadense_Gobar.D08G205200.1 Gobar.D08G205200.1 |
Low | No | 1348 | OG0002071 | Get ORF Coding potential... Type: noncoding Potential: -0.930 Folding energies... MFEI: -23.464 AMFE: -0.597 GC content %: 39.318 | |
| Gbarbadense_Gobar.D08G205200.2 Gobar.D08G205200.2 |
Low | No | 905 | OG0000137 | Get ORF Coding potential... Type: noncoding Potential: -0.905 Folding energies... MFEI: -23.060 AMFE: -0.543 GC content %: 42.431 | |
| Gbarbadense_Gobar.D08G205200.3 Gobar.D08G205200.3 |
High | No | 1295 | OG0002071 | Get ORF Coding potential... Type: noncoding Potential: -0.949 Folding energies... MFEI: -23.351 AMFE: -0.598 GC content %: 39.073 | |
| Gbarbadense_Gobar.D08G205200.4 Gobar.D08G205200.4 |
Low | No | 956 | OG0000137 | Get ORF Coding potential... Type: noncoding Potential: -0.772 Folding energies... MFEI: -23.901 AMFE: -0.563 GC content %: 42.469 | |
| Gbarbadense_Gobar.D08G205200.5 Gobar.D08G205200.5 |
Low | No | 904 | OG0000137 | Get ORF Coding potential... Type: noncoding Potential: -0.881 Folding energies... MFEI: -23.362 AMFE: -0.547 GC content %: 42.699 | |
| Gbarbadense_Gobar.D08G205200.6 Gobar.D08G205200.6 |
High | No | 784 | OG0000137 | Get ORF Coding potential... Type: noncoding Potential: -0.893 Folding energies... MFEI: -24.233 AMFE: -0.562 GC content %: 43.112 | |
| Gbarbadense_Gobar.D08G205200.7 Gobar.D08G205200.7 |
High | No | 849 | OG0000137 | Get ORF Coding potential... Type: noncoding Potential: -0.903 Folding energies... MFEI: -23.309 AMFE: -0.547 GC content %: 42.638 | |
| Gbarbadense_Gobar.D08G205200.8 Gobar.D08G205200.8 |
High | No | 785 | OG0000137 | Get ORF Coding potential... Type: noncoding Potential: -0.893 Folding energies... MFEI: -21.949 AMFE: -0.537 GC content %: 40.892 | |
| Gbarbadense_Gobar.D08G205200.9 Gobar.D08G205200.9 |
Low | No | 742 | OG0000137 | Get ORF Coding potential... Type: noncoding Potential: -0.880 Folding energies... MFEI: -23.005 AMFE: -0.544 GC content %: 42.318 |
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 |
|---|---|---|---|---|
| Gbarbadense_Gobar.D08G205200.1 | SwissProt | 2021-04-01 | Q6NNL9 | 4.02e-4 |
| Gbarbadense_Gobar.D08G205200.2 | SwissProt | 2021-04-01 | Q6NNL9 | 2.56e-4 |
| Gbarbadense_Gobar.D08G205200.4 | SwissProt | 2021-04-01 | Q6NNL9 | 2.73e-4 |
| Gbarbadense_Gobar.D08G205200.5 | SwissProt | 2021-04-01 | Q6NNL9 | 2.56e-4 |
| Gbarbadense_Gobar.D08G205200.9 | SwissProt | 2021-04-01 | Q6NNL9 | 1.97e-4 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
