Gbarbadense Gobar.D05G307300
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.D05G307300 [ Gobar.D05G307300] |
D05 | 29401082 | 29404204 | v1.1 | Gossypium barbadense (Phytozome 13) | Coding? Yes |
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.D05G307300.2 Gobar.D05G307300.2 |
Low | No | 681 | OG0032665 | Get ORF Coding potential... Type: noncoding Potential: -0.138 Folding energies... MFEI: -26.197 AMFE: -0.700 GC content %: 37.445 | |
| Gbarbadense_Gobar.D05G307300.3 Gobar.D05G307300.3 |
Low | No | 739 | OG0018494 | Get ORF Coding potential... Type: noncoding Potential: -0.048 Folding energies... MFEI: -23.572 AMFE: -0.640 GC content %: 36.806 | |
| Gbarbadense_Gobar.D05G307300.4 Gobar.D05G307300.4 |
Low | No | 801 | OG0000579 | Get ORF Coding potential... Type: noncoding Potential: -0.131 Folding energies... MFEI: -23.958 AMFE: -0.635 GC content %: 37.703 | |
| Gbarbadense_Gobar.D05G307300.5 Gobar.D05G307300.5 |
Low | No | 765 | OG0001721 | Get ORF Coding potential... Type: noncoding Potential: -0.113 Folding energies... MFEI: -24.131 AMFE: -0.643 GC content %: 37.516 | |
| Gbarbadense_Gobar.D05G307300.6 Gobar.D05G307300.6 |
Low | No | 762 | OG0001721 | Get ORF Coding potential... Type: noncoding Potential: -0.138 Folding energies... MFEI: -23.911 AMFE: -0.639 GC content %: 37.402 |
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.D05G307300.6 | SwissProt | 2021-04-01 | O23647 | 2.82e-7 |
| Gbarbadense_Gobar.D05G307300.2 | SwissProt | 2021-04-01 | O23647 | 3.57e-11 |
| Gbarbadense_Gobar.D05G307300.3 | SwissProt | 2021-04-01 | O23647 | 2.52e-7 |
| Gbarbadense_Gobar.D05G307300.4 | SwissProt | 2021-04-01 | O23647 | 9.82e-6 |
| Gbarbadense_Gobar.D05G307300.5 | SwissProt | 2021-04-01 | O23647 | 2.86e-7 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
