Gtomentosum Gotom.D04G153700
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
|
|---|---|---|---|---|---|---|
| Gtomentosum_Gotom.D04G153700 [ Gotom.D04G153700] |
D04 | 42630827 | 42632724 | v1.1 | Gossypium tomentosum (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
|
|---|---|---|---|---|---|---|
| Gtomentosum_Gotom.D04G153700.1 Gotom.D04G153700.1 |
Low | No | 386 | OG0182380 | Get ORF Coding potential... Type: noncoding Potential: -0.221 Folding energies... MFEI: -24.197 AMFE: -0.610 GC content %: 39.637 | |
| Gtomentosum_Gotom.D04G153700.2 Gotom.D04G153700.2 |
Low | No | 628 | OG0011892 | Get ORF Coding potential... Type: noncoding Potential: -0.650 Folding energies... MFEI: -23.535 AMFE: -0.669 GC content %: 35.191 | |
| Gtomentosum_Gotom.D04G153700.3 Gotom.D04G153700.3 |
Low | No | 625 | OG0011892 | Get ORF Coding potential... Type: noncoding Potential: -0.693 Folding energies... MFEI: -23.712 AMFE: -0.677 GC content %: 35.040 | |
| Gtomentosum_Gotom.D04G153700.4 Gotom.D04G153700.4 |
Low | No | 622 | OG0011892 | Get ORF Coding potential... Type: noncoding Potential: -0.613 Folding energies... MFEI: -22.814 AMFE: -0.648 GC content %: 35.209 | |
| Gtomentosum_Gotom.D04G153700.5 Gotom.D04G153700.5 |
Low | No | 619 | OG0011892 | Get ORF Coding potential... Type: noncoding Potential: -0.656 Folding energies... MFEI: -22.601 AMFE: -0.645 GC content %: 35.057 | |
| Gtomentosum_Gotom.D04G153700.6 Gotom.D04G153700.6 |
Low | No | 567 | OG0011715 | Get ORF Coding potential... Type: noncoding Potential: -0.400 Folding energies... MFEI: -22.187 AMFE: -0.645 GC content %: 34.392 | |
| Gtomentosum_Gotom.D04G153700.7 Gotom.D04G153700.7 |
Low | No | 564 | OG0011715 | Get ORF Coding potential... Type: noncoding Potential: -0.443 Folding energies... MFEI: -22.092 AMFE: -0.646 GC content %: 34.220 |
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 |
|---|---|---|---|---|
| Gtomentosum_Gotom.D04G153700.5 | SwissProt | 2021-04-01 | Q0JGY1 | 2.48e-4 |
| Gtomentosum_Gotom.D04G153700.6 | SwissProt | 2021-04-01 | P49227 | 2.31e-4 |
| Gtomentosum_Gotom.D04G153700.1 | SwissProt | 2021-04-01 | Q0JGY1 | 5.63e-5 |
| Gtomentosum_Gotom.D04G153700.7 | SwissProt | 2021-04-01 | Q0JGY1 | 5.69e-5 |
| Gtomentosum_Gotom.D04G153700.2 | SwissProt | 2021-04-01 | Q8LBI1 | 3.87e-4 |
| Gtomentosum_Gotom.D04G153700.3 | SwissProt | 2021-04-01 | Q0JGY1 | 2.54e-4 |
| Gtomentosum_Gotom.D04G153700.4 | SwissProt | 2021-04-01 | P49227 | 4.37e-4 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
