Gene
Klaxiflora Kalax.0368s0011
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
|
|---|---|---|---|---|---|---|---|
| Klaxiflora_Kalax.0368s0011 Kalax.0368s0011 |
scaffold_368 | 76494 | 78238 | Phytozome | [[Species:|]]"Species:" cannot be used as a page name in this wiki. | 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
|
|---|---|---|---|---|---|
| Klaxiflora_Kalax.0368s0011.1 Kalax.0368s0011.1 PAC:32589108 |
Low | Yes | 971 | Get ORF Coding potential... Type: noncoding Potential: -1.310 Folding energies... MFEI: -31.473 AMFE: -0.649 GC content %: 48.507 | |
| Klaxiflora_Kalax.0368s0011.2 Kalax.0368s0011.2 PAC:32589109 |
Low | Yes | 945 | Get ORF Coding potential... Type: noncoding Potential: -1.340 Folding energies... MFEI: -31.492 AMFE: -0.651 GC content %: 48.360 | |
| Klaxiflora_Kalax.0368s0011.3 Kalax.0368s0011.3 PAC:32589110 |
Low | Yes | 1114 | Get ORF Coding potential... Type: noncoding Potential: -1.305 Folding energies... MFEI: -31.589 AMFE: -0.666 GC content %: 47.397 | |
| Klaxiflora_Kalax.0368s0011.4 Kalax.0368s0011.4 PAC:32589111 |
Low | Yes | 1140 | Get ORF Coding potential... Type: noncoding Potential: -1.307 Folding energies... MFEI: -31.614 AMFE: -0.665 GC content %: 47.544 | |
| Klaxiflora_Kalax.0368s0011.5 Kalax.0368s0011.5 PAC:32589112 |
Low | Yes | 1518 | Get ORF Coding potential... Type: noncoding Potential: -1.332 Folding energies... MFEI: -31.067 AMFE: -0.699 GC content %: 44.466 |
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 |
|---|---|---|---|---|
| Klaxiflora_Kalax.0368s0011.1 | Rfam | 11.0 | MIR168 | 3.4e-22 |
| Klaxiflora_Kalax.0368s0011.2 | Rfam | 11.0 | MIR168 | 3.3e-22 |
| Klaxiflora_Kalax.0368s0011.3 | Rfam | 11.0 | MIR168 | 3.9e-22 |
| Klaxiflora_Kalax.0368s0011.4 | Rfam | 11.0 | MIR168 | 4.0e-22 |
| Klaxiflora_Kalax.0368s0011.5 | Rfam | 11.0 | MIR168 | 5.3e-22 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
