Gene
Mesculenta Manes.03G098900
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 | Source | Assembly | Species | Details
|
|---|---|---|---|---|---|---|---|
| Mesculenta_Manes.03G098900 Manes.03G098900 |
Chromosome03 | 17227720 | 17231867 | Phytozome | v6.1 | Manihot_esculenta | 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 | Sequence | Details
|
|---|---|---|---|---|---|
| Mesculenta_Manes.03G098900.1 Manes.03G098900.1 PAC:32364156 |
Low | No | 652 | Get ORF Coding potential... Type: noncoding Potential: -0.682 Folding energies... MFEI: -20.215 AMFE: -0.596 GC content %: 33.896 | |
| Mesculenta_Manes.03G098900.2 Manes.03G098900.2 PAC:32364158 |
Low | No | 485 | Get ORF Coding potential... Type: noncoding Potential: -0.525 Folding energies... MFEI: -25.711 AMFE: -0.646 GC content %: 39.794 | |
| Mesculenta_Manes.03G098900.3 Manes.03G098900.3 PAC:32364159 |
Low | No | 365 | Get ORF Coding potential... Type: noncoding Potential: -0.445 Folding energies... MFEI: -25.808 AMFE: -0.616 GC content %: 41.918 | |
| Mesculenta_Manes.03G098900.4 Manes.03G098900.4 PAC:32364160 |
Low | No | 426 | Get ORF Coding potential... Type: noncoding Potential: -0.488 Folding energies... MFEI: -25.634 AMFE: -0.631 GC content %: 40.610 | |
| Mesculenta_Manes.03G098900.5 Manes.03G098900.5 PAC:32364157 |
Low | No | 708 | Get ORF Coding potential... Type: noncoding Potential: -0.631 Folding energies... MFEI: -22.966 AMFE: -0.658 GC content %: 34.887 |
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 |
|---|---|---|---|---|
| Mesculenta_Manes.03G098900.1 | SwissProt | 2015-06-01 | A7ME44 | 1.0e-9 |
| Mesculenta_Manes.03G098900.2 | SwissProt | 2015-06-01 | A7ME44 | 6.0e-10 |
| Mesculenta_Manes.03G098900.3 | SwissProt | 2015-06-01 | A7ME44 | 2.0e-10 |
| Mesculenta_Manes.03G098900.4 | SwissProt | 2015-06-01 | A7ME44 | 4.0e-10 |
| Mesculenta_Manes.03G098900.5 | SwissProt | 2015-06-01 | A7ME44 | 2.0e-9 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
