Ghirsutum Gohir.D05G291300
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
|
|---|---|---|---|---|---|---|
| Ghirsutum_Gohir.D05G291300 [ Gohir.D05G291300] |
D05 | 30811129 | 30814391 | v2.1 | Gossypium hirsutum (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
|
|---|---|---|---|---|---|---|
| Ghirsutum_Gohir.D05G291300.1 Gohir.D05G291300.1 |
Low | No | 548 | OG0000579 | Get ORF Coding potential... Type: noncoding Potential: -0.720 Folding energies... MFEI: -24.343 AMFE: -0.568 GC content %: 42.883 | |
| Ghirsutum_Gohir.D05G291300.10 Gohir.D05G291300.10 |
Low | No | 1678 | OG0019239 | Get ORF Coding potential... Type: noncoding Potential: -0.997 Folding energies... MFEI: -23.427 AMFE: -0.669 GC content %: 35.042 | |
| Ghirsutum_Gohir.D05G291300.11 Gohir.D05G291300.11 |
Low | No | 810 | OG0034071 | Get ORF Coding potential... Type: noncoding Potential: -0.085 Folding energies... MFEI: -24.481 AMFE: -0.646 GC content %: 37.901 | |
| Ghirsutum_Gohir.D05G291300.12 Gohir.D05G291300.12 |
Low | No | 1711 | OG0019239 | Get ORF Coding potential... Type: noncoding Potential: -1.025 Folding energies... MFEI: -23.425 AMFE: -0.667 GC content %: 35.126 | |
| Ghirsutum_Gohir.D05G291300.13 Gohir.D05G291300.13 |
Low | No | 807 | OG0034072 | Get ORF Coding potential... Type: noncoding Potential: -0.109 Folding energies... MFEI: -24.473 AMFE: -0.648 GC content %: 37.794 | |
| Ghirsutum_Gohir.D05G291300.4 Gohir.D05G291300.4 |
Low | No | 1283 | OG0175147 | Get ORF Coding potential... Type: noncoding Potential: -0.202 Folding energies... MFEI: -22.915 AMFE: -0.671 GC content %: 34.139 | |
| Ghirsutum_Gohir.D05G291300.8 Gohir.D05G291300.8 |
Low | No | 542 | OG0034073 | Get ORF Coding potential... Type: noncoding Potential: -0.742 Folding energies... MFEI: -24.299 AMFE: -0.570 GC content %: 42.620 | |
| Ghirsutum_Gohir.D05G291300.9 Gohir.D05G291300.9 |
Low | No | 1714 | OG0019239 | Get ORF Coding potential... Type: noncoding Potential: -1.001 Folding energies... MFEI: -23.501 AMFE: -0.668 GC content %: 35.181 |
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 |
|---|---|---|---|---|
| Ghirsutum_Gohir.D05G291300.1 | SwissProt | 2021-04-01 | Q08047 | 6.93e-8 |
| Ghirsutum_Gohir.D05G291300.8 | SwissProt | 2021-04-01 | Q08047 | 6.77e-9 |
| Ghirsutum_Gohir.D05G291300.10 | SwissProt | 2021-04-01 | O23647 | 2.69e-6 |
| Ghirsutum_Gohir.D05G291300.9 | SwissProt | 2021-04-01 | O23647 | 6.41e-6 |
| Ghirsutum_Gohir.D05G291300.11 | SwissProt | 2021-04-01 | O23647 | 5.73e-7 |
| Ghirsutum_Gohir.D05G291300.12 | SwissProt | 2021-04-01 | O23647 | 6.39e-6 |
| Ghirsutum_Gohir.D05G291300.13 | SwissProt | 2021-04-01 | O23647 | 5.66e-7 |
| Ghirsutum_Gohir.D05G291300.4 | SwissProt | 2021-04-01 | O23647 | 2.99e-6 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
