Ghirsutum Gohir.D06G146050
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.D06G146050 [ Gohir.D06G146050] |
D06 | 53384352 | 53387807 | 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.D06G146050.1 Gohir.D06G146050.1 |
Low | No | 888 | OG0008127 | Get ORF Coding potential... Type: noncoding Potential: -0.851 Folding energies... MFEI: -26.779 AMFE: -0.652 GC content %: 41.104 | |
| Ghirsutum_Gohir.D06G146050.2 Gohir.D06G146050.2 |
Low | No | 821 | OG0008127 | Get ORF Coding potential... Type: noncoding Potential: -0.919 Folding energies... MFEI: -26.309 AMFE: -0.637 GC content %: 41.291 | |
| Ghirsutum_Gohir.D06G146050.3 Gohir.D06G146050.3 |
Low | No | 815 | OG0008127 | Get ORF Coding potential... Type: noncoding Potential: -0.546 Folding energies... MFEI: -26.196 AMFE: -0.637 GC content %: 41.104 | |
| Ghirsutum_Gohir.D06G146050.4 Gohir.D06G146050.4 |
Low | No | 748 | OG0008127 | Get ORF Coding potential... Type: noncoding Potential: -0.693 Folding energies... MFEI: -26.270 AMFE: -0.636 GC content %: 41.310 |
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.D06G146050.1 | SwissProt | 2021-04-01 | Q9FJL0 | 4.39e-9 |
| Ghirsutum_Gohir.D06G146050.2 | SwissProt | 2021-04-01 | Q9FJL0 | 3.22e-9 |
| Ghirsutum_Gohir.D06G146050.3 | SwissProt | 2021-04-01 | Q9M1R2 | 1.14e-9 |
| Ghirsutum_Gohir.D06G146050.4 | SwissProt | 2021-04-01 | Q9M1R2 | 8.18e-10 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
