Gene
Esalsugineum Thhalv10009171m.g
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
|
|---|---|---|---|---|---|---|---|
| Esalsugineum_Thhalv10009171m.g Thhalv10009171m.g |
scaffold_5 | 12048377 | 12049645 | Phytozome | v1.0 | Eutrema_salsugineum | 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
|
|---|---|---|---|---|---|
| Esalsugineum_Thhalv10009171m Thhalv10009171m PAC:20188405 |
High | No | 687 | Get ORF Coding potential... Type: noncoding Potential: -1.138 Folding energies... MFEI: -22.314 AMFE: -0.587 GC content %: 37.991 | |
| Esalsugineum_Thhalv10009173m Thhalv10009173m PAC:20188406 |
High | No | 684 | Get ORF Coding potential... Type: noncoding Potential: -1.138 Folding energies... MFEI: -22.485 AMFE: -0.594 GC content %: 37.865 | |
| Esalsugineum_Thhalv10009252m Thhalv10009252m PAC:20188407 |
Low | No | 815 | Get ORF Coding potential... Type: noncoding Potential: -1.156 Folding energies... MFEI: -22.491 AMFE: -0.626 GC content %: 35.951 | |
| Esalsugineum_Thhalv10009255m Thhalv10009255m PAC:20188408 |
High | No | 720 | Get ORF Coding potential... Type: noncoding Potential: -1.069 Folding energies... MFEI: -22.778 AMFE: -0.605 GC content %: 37.639 |
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 |
|---|---|---|---|---|
| Esalsugineum_Thhalv10009252m | RepBase (RepeatMasker) | 2014-01-31 | EnSpm-30_SBi |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
