Gbarbadense Gobar.A12G146900
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.A12G146900 [ Gobar.A12G146900] |
A12 | 78413740 | 78416329 | 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.A12G146900.1 Gobar.A12G146900.1 |
Low | No | 762 | OG0000057 | Get ORF Coding potential... Type: noncoding Potential: -0.936 Folding energies... MFEI: -27.139 AMFE: -0.696 GC content %: 38.976 | |
| Gbarbadense_Gobar.A12G146900.2 Gobar.A12G146900.2 |
Low | No | 1124 | OG0000057 | Get ORF Coding potential... Type: noncoding Potential: -1.047 Folding energies... MFEI: -27.491 AMFE: -0.698 GC content %: 39.413 | |
| Gbarbadense_Gobar.A12G146900.3 Gobar.A12G146900.3 |
Low | No | 1166 | OG0000057 | Get ORF Coding potential... Type: noncoding Potential: -1.183 Folding energies... MFEI: -27.813 AMFE: -0.710 GC content %: 39.194 | |
| Gbarbadense_Gobar.A12G146900.4 Gobar.A12G146900.4 |
Low | No | 1045 | OG0000057 | Get ORF Coding potential... Type: noncoding Potential: -1.174 Folding energies... MFEI: -26.153 AMFE: -0.694 GC content %: 37.703 | |
| Gbarbadense_Gobar.A12G146900.5 Gobar.A12G146900.5 |
Low | No | 774 | OG0000057 | Get ORF Coding potential... Type: noncoding Potential: -1.077 Folding energies... MFEI: -27.274 AMFE: -0.690 GC content %: 39.535 | |
| Gbarbadense_Gobar.A12G146900.6 Gobar.A12G146900.6 |
Low | No | 803 | OG0000057 | Get ORF Coding potential... Type: noncoding Potential: -1.025 Folding energies... MFEI: -27.148 AMFE: -0.706 GC content %: 38.481 | |
| Gbarbadense_Gobar.A12G146900.7 Gobar.A12G146900.7 |
Low | No | 756 | OG0000057 | Get ORF Coding potential... Type: noncoding Potential: -1.109 Folding energies... MFEI: -26.812 AMFE: -0.704 GC content %: 38.095 | |
| Gbarbadense_Gobar.A12G146900.8 Gobar.A12G146900.8 |
Low | No | 737 | OG0000057 | Get ORF Coding potential... Type: noncoding Potential: -1.244 Folding energies... MFEI: -26.269 AMFE: -0.684 GC content %: 38.399 | |
| Gbarbadense_Gobar.A12G146900.9 Gobar.A12G146900.9 |
Low | No | 680 | OG0000057 | Get ORF Coding potential... Type: noncoding Potential: -1.122 Folding energies... MFEI: -25.279 AMFE: -0.666 GC content %: 37.941 |
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.A12G146900.5 | SwissProt | 2021-04-01 | O65573 | 5.79e-7 |
| Gbarbadense_Gobar.A12G146900.6 | SwissProt | 2021-04-01 | O65573 | 6.45e-7 |
| Gbarbadense_Gobar.A12G146900.1 | SwissProt | 2021-04-01 | O65573 | 5.43e-7 |
| Gbarbadense_Gobar.A12G146900.7 | SwissProt | 2021-04-01 | O65573 | 5.29e-7 |
| Gbarbadense_Gobar.A12G146900.2 | SwissProt | 2021-04-01 | O65573 | 2.98e-7 |
| Gbarbadense_Gobar.A12G146900.8 | SwissProt | 2021-04-01 | O65573 | 8.01e-7 |
| Gbarbadense_Gobar.A12G146900.3 | SwissProt | 2021-04-01 | O65573 | 6.33e-7 |
| Gbarbadense_Gobar.A12G146900.9 | SwissProt | 2021-04-01 | O65573 | 6.45e-8 |
| Gbarbadense_Gobar.A12G146900.4 | SwissProt | 2021-04-01 | O65573 | 2.52e-7 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
