Gbarbadense Gobar.A03G106400
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
|
|---|---|---|---|---|---|---|
| Gbarbadense_Gobar.A03G106400 [ Gobar.A03G106400] |
A03 | 47752435 | 47757304 | v1.1 | Gossypium barbadense (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
|
|---|---|---|---|---|---|---|
| Gbarbadense_Gobar.A03G106400.1 Gobar.A03G106400.1 |
Low | No | 1025 | OG0000714 | Get ORF Coding potential... Type: noncoding Potential: -0.966 Folding energies... MFEI: -24.716 AMFE: -0.608 GC content %: 40.683 | |
| Gbarbadense_Gobar.A03G106400.2 Gobar.A03G106400.2 |
Low | No | 1807 | OG0000714 | Get ORF Coding potential... Type: noncoding Potential: -1.106 Folding energies... MFEI: -23.890 AMFE: -0.637 GC content %: 37.521 | |
| Gbarbadense_Gobar.A03G106400.3 Gobar.A03G106400.3 |
Low | No | 1862 | OG0000714 | Get ORF Coding potential... Type: noncoding Potential: -1.109 Folding energies... MFEI: -23.459 AMFE: -0.625 GC content %: 37.540 | |
| Gbarbadense_Gobar.A03G106400.4 Gobar.A03G106400.4 |
Low | No | 970 | OG0000714 | Get ORF Coding potential... Type: noncoding Potential: -0.955 Folding energies... MFEI: -25.567 AMFE: -0.626 GC content %: 40.825 | |
| Gbarbadense_Gobar.A03G106400.5 Gobar.A03G106400.5 |
Low | No | 889 | OG0000714 | Get ORF Coding potential... Type: noncoding Potential: -0.938 Folding energies... MFEI: -20.281 AMFE: -0.538 GC content %: 37.683 | |
| Gbarbadense_Gobar.A03G106400.6 Gobar.A03G106400.6 |
Low | No | 834 | OG0000714 | Get ORF Coding potential... Type: noncoding Potential: -0.924 Folding energies... MFEI: -20.971 AMFE: -0.557 GC content %: 37.650 |
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 |
|---|---|---|---|---|
| Gbarbadense_Gobar.A03G106400.2 | SwissProt | 2021-04-01 | Q9FMA3 | 8.85e-4 |
| Gbarbadense_Gobar.A03G106400.3 | SwissProt | 2021-04-01 | Q9FMA3 | 1.0e-3 |
| Gbarbadense_Gobar.A03G106400.4 | SwissProt | 2021-04-01 | Q9FMA3 | 3.55e-5 |
| Gbarbadense_Gobar.A03G106400.5 | SwissProt | 2021-04-01 | Q9FMA3 | 2.9e-5 |
| Gbarbadense_Gobar.A03G106400.6 | SwissProt | 2021-04-01 | Q9FMA3 | 2.43e-5 |
| Gbarbadense_Gobar.A03G106400.1 | SwissProt | 2021-04-01 | Q9FMA3 | 4.04e-5 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
