Stuberosum PGSC0003DMG400013212
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
|
|---|---|---|---|---|---|---|
| Stuberosum_PGSC0003DMG400013212 [ PGSC0003DMG400013212] |
ST4.03ch02 | 25705395 | 25710257 | v4.03 | Solanum tuberosum (Phytozome 13) | Coding? Yes |
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
|
|---|---|---|---|---|---|---|
| Stuberosum_PGSC0003DMT400034362 PGSC0003DMT400034362 |
Low | No | 264 | OG0334286 | Get ORF Coding potential... Type: noncoding Potential: -0.396 Folding energies... MFEI: -26.136 AMFE: -0.580 GC content %: 45.076 | |
| Stuberosum_PGSC0003DMT400034363 PGSC0003DMT400034363 |
Low | No | 300 | OG0021896 | Get ORF Coding potential... Type: noncoding Potential: -0.024 Folding energies... MFEI: -19.567 AMFE: -0.549 GC content %: 35.667 | |
| Stuberosum_PGSC0003DMT400034365 PGSC0003DMT400034365 |
Low | No | 300 | OG0021896 | Get ORF Coding potential... Type: noncoding Potential: -0.024 Folding energies... MFEI: -19.567 AMFE: -0.549 GC content %: 35.667 | |
| Stuberosum_PGSC0003DMT400034366 PGSC0003DMT400034366 |
Low | No | 300 | OG0021896 | Get ORF Coding potential... Type: noncoding Potential: -0.024 Folding energies... MFEI: -19.567 AMFE: -0.549 GC content %: 35.667 |
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 |
|---|---|---|---|---|
| Stuberosum_PGSC0003DMT400034362 | SwissProt | 2021-04-01 | Q9FJL0 | 1.45e-34 |
| Stuberosum_PGSC0003DMT400034363 | SwissProt | 2021-04-01 | Q9FJL0 | 7.82e-25 |
| Stuberosum_PGSC0003DMT400034365 | SwissProt | 2021-04-01 | Q9FJL0 | 7.82e-25 |
| Stuberosum_PGSC0003DMT400034366 | SwissProt | 2021-04-01 | Q9FJL0 | 7.82e-25 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
