Ghirsutum Gohir.D06G077800
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.D06G077800 [ Gohir.D06G077800] |
D06 | 15125560 | 15129403 | v2.1 | Gossypium hirsutum (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
|
|---|---|---|---|---|---|---|
| Ghirsutum_Gohir.D06G077800.10 Gohir.D06G077800.10 |
Low | No | 1090 | OG0000094 | Get ORF Coding potential... Type: noncoding Potential: -0.781 Folding energies... MFEI: -24.486 AMFE: -0.618 GC content %: 39.633 | |
| Ghirsutum_Gohir.D06G077800.11 Gohir.D06G077800.11 |
Low | No | 1109 | OG0000094 | Get ORF Coding potential... Type: noncoding Potential: -0.700 Folding energies... MFEI: -24.382 AMFE: -0.615 GC content %: 39.675 | |
| Ghirsutum_Gohir.D06G077800.12 Gohir.D06G077800.12 |
Low | No | 998 | OG0000094 | Get ORF Coding potential... Type: noncoding Potential: -0.762 Folding energies... MFEI: -23.938 AMFE: -0.594 GC content %: 40.281 | |
| Ghirsutum_Gohir.D06G077800.13 Gohir.D06G077800.13 |
Low | No | 784 | OG0000094 | Get ORF Coding potential... Type: noncoding Potential: -0.705 Folding energies... MFEI: -22.921 AMFE: -0.553 GC content %: 41.454 | |
| Ghirsutum_Gohir.D06G077800.14 Gohir.D06G077800.14 |
Low | No | 1017 | OG0000094 | Get ORF Coding potential... Type: noncoding Potential: -0.766 Folding energies... MFEI: -23.835 AMFE: -0.591 GC content %: 40.315 | |
| Ghirsutum_Gohir.D06G077800.15 Gohir.D06G077800.15 |
Low | No | 765 | OG0000094 | Get ORF Coding potential... Type: noncoding Potential: -0.699 Folding energies... MFEI: -23.150 AMFE: -0.559 GC content %: 41.438 | |
| Ghirsutum_Gohir.D06G077800.16 Gohir.D06G077800.16 |
Low | No | 1005 | OG0000094 | Get ORF Coding potential... Type: noncoding Potential: -0.969 Folding energies... MFEI: -24.060 AMFE: -0.609 GC content %: 39.502 | |
| Ghirsutum_Gohir.D06G077800.17 Gohir.D06G077800.17 |
Low | No | 1088 | OG0000094 | Get ORF Coding potential... Type: noncoding Potential: -0.857 Folding energies... MFEI: -23.199 AMFE: -0.594 GC content %: 39.062 | |
| Ghirsutum_Gohir.D06G077800.18 Gohir.D06G077800.18 |
Low | No | 929 | OG0000094 | Get ORF Coding potential... Type: noncoding Potential: -0.951 Folding energies... MFEI: -23.854 AMFE: -0.588 GC content %: 40.581 | |
| Ghirsutum_Gohir.D06G077800.6 Gohir.D06G077800.6 |
Low | No | 706 | OG0000094 | Get ORF Coding potential... Type: noncoding Potential: -0.804 Folding energies... MFEI: -22.224 AMFE: -0.539 GC content %: 41.218 | |
| Ghirsutum_Gohir.D06G077800.7 Gohir.D06G077800.7 |
Low | No | 1031 | OG0000094 | Get ORF Coding potential... Type: noncoding Potential: -0.904 Folding energies... MFEI: -23.928 AMFE: -0.608 GC content %: 39.379 | |
| Ghirsutum_Gohir.D06G077800.8 Gohir.D06G077800.8 |
Low | No | 970 | OG0000094 | Get ORF Coding potential... Type: noncoding Potential: -0.889 Folding energies... MFEI: -22.598 AMFE: -0.580 GC content %: 38.969 | |
| Ghirsutum_Gohir.D06G077800.9 Gohir.D06G077800.9 |
Low | No | 985 | OG0000094 | Get ORF Coding potential... Type: noncoding Potential: -0.893 Folding energies... MFEI: -22.995 AMFE: -0.584 GC content %: 39.391 |
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.D06G077800.16 | SwissProt | 2021-04-01 | Q54YG5 | 6.45e-9 |
| Ghirsutum_Gohir.D06G077800.11 | SwissProt | 2021-04-01 | Q94A27 | 4.56e-4 |
| Ghirsutum_Gohir.D06G077800.9 | SwissProt | 2021-04-01 | Q54YG5 | 3.86e-6 |
| Ghirsutum_Gohir.D06G077800.17 | SwissProt | 2021-04-01 | Q54YG5 | 4.48e-6 |
| Ghirsutum_Gohir.D06G077800.12 | SwissProt | 2021-04-01 | Q8IUR0 | 1.87e-4 |
| Ghirsutum_Gohir.D06G077800.18 | SwissProt | 2021-04-01 | Q54YG5 | 3.5e-6 |
| Ghirsutum_Gohir.D06G077800.13 | SwissProt | 2021-04-01 | Q94A27 | 1.66e-4 |
| Ghirsutum_Gohir.D06G077800.6 | SwissProt | 2021-04-01 | Q94A27 | 9.01e-5 |
| Ghirsutum_Gohir.D06G077800.14 | SwissProt | 2021-04-01 | Q94A27 | 4.34e-4 |
| Ghirsutum_Gohir.D06G077800.7 | SwissProt | 2021-04-01 | Q54YG5 | 6.77e-9 |
... further results
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
