Gene
Klaxiflora Kalax.1343s0003
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.1343s0003 Kalax.1343s0003 |
scaffold_1343 | 11702 | 14705 | 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.1343s0003.1 Kalax.1343s0003.1 PAC:32559713 |
High | No | 1841 | Get ORF Coding potential... Type: noncoding Potential: -1.295 Folding energies... MFEI: -24.302 AMFE: -0.605 GC content %: 40.196 | |
| Klaxiflora_Kalax.1343s0003.2 Kalax.1343s0003.2 PAC:32559714 |
Low | No | 1513 | Get ORF Coding potential... Type: noncoding Potential: -1.203 Folding energies... MFEI: -27.092 AMFE: -0.665 GC content %: 40.714 | |
| Klaxiflora_Kalax.1343s0003.3 Kalax.1343s0003.3 PAC:32559715 |
Low | No | 1122 | Get ORF Coding potential... Type: noncoding Potential: -1.247 Folding energies... MFEI: -28.253 AMFE: -0.635 GC content %: 44.474 |
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.1343s0003.2 | RepBase (RepeatMasker) | 2014-01-31 | LT1_EPa | |
| Klaxiflora_Kalax.1343s0003.3 | RepBase (RepeatMasker) | 2014-01-31 | LT1_EPa |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
