Ghirsutum Gohir.1Z049675
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.1Z049675 [ Gohir.1Z049675] |
scaffold_991 | 9245 | 11928 | 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.1Z049675.1 Gohir.1Z049675.1 |
Low | No | 927 | OG0004131 | Get ORF Coding potential... Type: noncoding Potential: -1.001 Folding energies... MFEI: -24.962 AMFE: -0.590 GC content %: 42.287 | |
| Ghirsutum_Gohir.1Z049675.2 Gohir.1Z049675.2 |
Low | No | 864 | OG0004131 | Get ORF Coding potential... Type: noncoding Potential: -0.987 Folding energies... MFEI: -24.317 AMFE: -0.569 GC content %: 42.708 | |
| Ghirsutum_Gohir.1Z049675.3 Gohir.1Z049675.3 |
Low | No | 833 | OG0004131 | Get ORF Coding potential... Type: noncoding Potential: -0.979 Folding energies... MFEI: -24.514 AMFE: -0.578 GC content %: 42.377 | |
| Ghirsutum_Gohir.1Z049675.4 Gohir.1Z049675.4 |
Low | No | 896 | OG0004131 | Get ORF Coding potential... Type: noncoding Potential: -0.994 Folding energies... MFEI: -24.833 AMFE: -0.592 GC content %: 41.964 | |
| Ghirsutum_Gohir.1Z049675.5 Gohir.1Z049675.5 |
Low | No | 914 | OG0033749 | Get ORF Coding potential... Type: noncoding Potential: -1.092 Folding energies... MFEI: -24.486 AMFE: -0.574 GC content %: 42.670 | |
| Ghirsutum_Gohir.1Z049675.6 Gohir.1Z049675.6 |
Low | No | 850 | OG0004131 | Get ORF Coding potential... Type: noncoding Potential: -1.078 Folding energies... MFEI: -24.965 AMFE: -0.586 GC content %: 42.588 | |
| Ghirsutum_Gohir.1Z049675.7 Gohir.1Z049675.7 |
Low | No | 883 | OG0004131 | Get ORF Coding potential... Type: noncoding Potential: -1.085 Folding energies... MFEI: -24.337 AMFE: -0.575 GC content %: 42.356 | |
| Ghirsutum_Gohir.1Z049675.8 Gohir.1Z049675.8 |
Low | No | 881 | OG0004131 | Get ORF Coding potential... Type: noncoding Potential: -1.085 Folding energies... MFEI: -24.688 AMFE: -0.575 GC content %: 42.906 | |
| Ghirsutum_Gohir.1Z049675.9 Gohir.1Z049675.9 |
Low | No | 1350 | OG0173717 | Get ORF Coding potential... Type: noncoding Potential: -1.153 Folding energies... MFEI: -21.719 AMFE: -0.598 GC content %: 36.296 |
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.1Z049675.9 | SwissProt | 2021-04-01 | Q6DHJ6 | 5.26e-5 |
| Ghirsutum_Gohir.1Z049675.4 | SwissProt | 2021-04-01 | Q6DHJ6 | 2.19e-4 |
| Ghirsutum_Gohir.1Z049675.5 | SwissProt | 2021-04-01 | Q6DHJ6 | 3.41e-5 |
| Ghirsutum_Gohir.1Z049675.6 | SwissProt | 2021-04-01 | Q6DHJ6 | 3.12e-5 |
| Ghirsutum_Gohir.1Z049675.1 | SwissProt | 2021-04-01 | Q6DHJ6 | 2.29e-4 |
| Ghirsutum_Gohir.1Z049675.7 | SwissProt | 2021-04-01 | Q6DHJ6 | 3.28e-5 |
| Ghirsutum_Gohir.1Z049675.2 | SwissProt | 2021-04-01 | Q6DHJ6 | 2.11e-4 |
| Ghirsutum_Gohir.1Z049675.8 | SwissProt | 2021-04-01 | Q6DHJ6 | 3.26e-5 |
| Ghirsutum_Gohir.1Z049675.3 | SwissProt | 2021-04-01 | Q6DHJ6 | 2.01e-4 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
