Gene
Mesculenta Manes.01G025800
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.01G025800 Manes.01G025800 |
Chromosome01 | 4064223 | 4073417 | 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.01G025800.1 Manes.01G025800.1 PAC:32358999 |
High | No | 949 | Get ORF Coding potential... Type: noncoding Potential: -1.119 Folding energies... MFEI: -25.606 AMFE: -0.655 GC content %: 39.094 | |
| Mesculenta_Manes.01G025800.2 Manes.01G025800.2 PAC:32359003 |
High | No | 898 | Get ORF Coding potential... Type: noncoding Potential: -1.107 Folding energies... MFEI: -26.158 AMFE: -0.662 GC content %: 39.532 | |
| Mesculenta_Manes.01G025800.3 Manes.01G025800.3 PAC:32359000 |
Low | No | 726 | Get ORF Coding potential... Type: noncoding Potential: -1.071 Folding energies... MFEI: -23.209 AMFE: -0.653 GC content %: 35.537 | |
| Mesculenta_Manes.01G025800.4 Manes.01G025800.4 PAC:32359001 |
Low | No | 713 | Get ORF Coding potential... Type: noncoding Potential: -1.067 Folding energies... MFEI: -23.380 AMFE: -0.651 GC content %: 35.905 | |
| Mesculenta_Manes.01G025800.5 Manes.01G025800.5 PAC:32359002 |
High | No | 484 | Get ORF Coding potential... Type: noncoding Potential: -0.978 Folding energies... MFEI: -21.488 AMFE: -0.608 GC content %: 35.331 |
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.01G025800.3 | RepBase (RepeatMasker) | 2014-01-31 | CACTA_LP | |
| Mesculenta_Manes.01G025800.4 | RepBase (RepeatMasker) | 2014-01-31 | CACTA_LP |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
