Ghirsutum Gohir.A07G149500
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.A07G149500 [ Gohir.A07G149500] |
A07 | 39591363 | 39606588 | 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.A07G149500.12 Gohir.A07G149500.12 |
Low | No | 1204 | OG0001036 | Get ORF Coding potential... Type: noncoding Potential: -0.033 Folding energies... MFEI: -20.972 AMFE: -0.707 GC content %: 29.651 | |
| Ghirsutum_Gohir.A07G149500.13 Gohir.A07G149500.13 |
Low | No | 1348 | OG0001036 | Get ORF Coding potential... Type: noncoding Potential: -0.088 Folding energies... MFEI: -21.254 AMFE: -0.706 GC content %: 30.119 | |
| Ghirsutum_Gohir.A07G149500.14 Gohir.A07G149500.14 |
Low | No | 1082 | OG0001036 | Get ORF Coding potential... Type: noncoding Potential: -0.012 Folding energies... MFEI: -21.137 AMFE: -0.717 GC content %: 29.482 | |
| Ghirsutum_Gohir.A07G149500.15 Gohir.A07G149500.15 |
Low | No | 1193 | OG0001036 | Get ORF Coding potential... Type: noncoding Potential: -0.072 Folding energies... MFEI: -23.537 AMFE: -0.683 GC content %: 34.451 | |
| Ghirsutum_Gohir.A07G149500.17 Gohir.A07G149500.17 |
Low | No | 1229 | OG0001036 | Get ORF Coding potential... Type: noncoding Potential: -0.012 Folding energies... MFEI: -20.301 AMFE: -0.693 GC content %: 29.292 | |
| Ghirsutum_Gohir.A07G149500.18 Gohir.A07G149500.18 |
Low | No | 1470 | OG0001036 | Get ORF Coding potential... Type: noncoding Potential: -0.113 Folding energies... MFEI: -20.918 AMFE: -0.693 GC content %: 30.204 |
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.A07G149500.15 | SwissProt | 2021-04-01 | Q9FZ81 | 6.73e-19 |
| Ghirsutum_Gohir.A07G149500.17 | SwissProt | 2021-04-01 | Q9M291 | 8.98e-15 |
| Ghirsutum_Gohir.A07G149500.18 | SwissProt | 2021-04-01 | Q9FZ81 | 1.35e-18 |
| Ghirsutum_Gohir.A07G149500.12 | SwissProt | 2021-04-01 | Q9FZ81 | 7.79e-19 |
| Ghirsutum_Gohir.A07G149500.13 | SwissProt | 2021-04-01 | Q9FZ81 | 1.04e-18 |
| Ghirsutum_Gohir.A07G149500.14 | SwissProt | 2021-04-01 | Q9FZ81 | 4.9e-19 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
