Mesculenta Manes.06G063900
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
|
|---|---|---|---|---|---|---|
| Mesculenta_Manes.06G063900 [ Manes.06G063900] |
Chromosome06 | 19881474 | 19885220 | v8.1 | Manihot esculenta (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
|
|---|---|---|---|---|---|---|
| Mesculenta_Manes.06G063900.10 Manes.06G063900.10 |
Low | Yes | 1083 | OG0004188 | Get ORF Coding potential... Type: noncoding Potential: -0.676 Folding energies... MFEI: -32.641 AMFE: -0.762 GC content %: 42.844 | |
| Mesculenta_Manes.06G063900.3 Manes.06G063900.3 |
Low | Yes | 1011 | OG0004188 | Get ORF Coding potential... Type: noncoding Potential: -0.835 Folding energies... MFEI: -33.205 AMFE: -0.766 GC content %: 43.323 | |
| Mesculenta_Manes.06G063900.5 Manes.06G063900.5 |
Low | Yes | 1158 | OG0004188 | Get ORF Coding potential... Type: noncoding Potential: -0.696 Folding energies... MFEI: -31.416 AMFE: -0.733 GC content %: 42.832 | |
| Mesculenta_Manes.06G063900.6 Manes.06G063900.6 |
Low | Yes | 781 | OG0004188 | Get ORF Coding potential... Type: noncoding Potential: -0.753 Folding energies... MFEI: -34.648 AMFE: -0.830 GC content %: 41.741 | |
| Mesculenta_Manes.06G063900.7 Manes.06G063900.7 |
Low | Yes | 943 | OG0004188 | Get ORF Coding potential... Type: noncoding Potential: -0.815 Folding energies... MFEI: -33.319 AMFE: -0.772 GC content %: 43.160 | |
| Mesculenta_Manes.06G063900.8 Manes.06G063900.8 |
Low | Yes | 1086 | OG0004188 | Get ORF Coding potential... Type: noncoding Potential: -0.854 Folding energies... MFEI: -31.860 AMFE: -0.736 GC content %: 43.278 | |
| Mesculenta_Manes.06G063900.9 Manes.06G063900.9 |
Low | Yes | 937 | OG0004188 | Get ORF Coding potential... Type: noncoding Potential: -0.813 Folding energies... MFEI: -33.298 AMFE: -0.772 GC content %: 43.116 |
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.06G063900.7 | Rfam | 14.6 | MIR2118 | 2.4e-9 |
| Mesculenta_Manes.06G063900.8 | Rfam | 14.6 | MIR2118 | 2.8e-9 |
| Mesculenta_Manes.06G063900.10 | Rfam | 14.6 | MIR2118 | 2.8e-9 |
| Mesculenta_Manes.06G063900.9 | Rfam | 14.6 | MIR2118 | 2.4e-9 |
| Mesculenta_Manes.06G063900.3 | Rfam | 14.6 | MIR2118 | 2.6e-9 |
| Mesculenta_Manes.06G063900.5 | Rfam | 14.6 | MIR2118 | 3.0e-9 |
| Mesculenta_Manes.06G063900.6 | Rfam | 14.6 | MIR2118 | 2.0e-9 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
