Stuberosum PGSC0003DMG400015733
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_PGSC0003DMG400015733 [ PGSC0003DMG400015733] |
ST4.03ch06 | 11901755 | 11902184 | v4.03 | Solanum tuberosum (Phytozome 13) | 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 | Orthologous group | Sequence | Details
|
|---|---|---|---|---|---|---|
| Stuberosum_PGSC0003DMT400040686 PGSC0003DMT400040686 |
Low | No | 300 | OG0021906 | Get ORF Coding potential... Type: noncoding Potential: -0.100 Folding energies... MFEI: -22.933 AMFE: -0.488 GC content %: 47.000 | |
| Stuberosum_PGSC0003DMT400040687 PGSC0003DMT400040687 |
Low | No | 345 | OG0021906 | Get ORF Coding potential... Type: noncoding Potential: -0.027 Folding energies... MFEI: -22.261 AMFE: -0.474 GC content %: 46.957 | |
| Stuberosum_PGSC0003DMT400040688 PGSC0003DMT400040688 |
Low | No | 345 | OG0021906 | Get ORF Coding potential... Type: noncoding Potential: -0.027 Folding energies... MFEI: -22.261 AMFE: -0.474 GC content %: 46.957 |
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_PGSC0003DMT400040687 | SwissProt | 2021-04-01 | Q9ZUU8 | 1.81e-33 |
| Stuberosum_PGSC0003DMT400040688 | SwissProt | 2021-04-01 | Q9ZUU8 | 1.81e-33 |
| Stuberosum_PGSC0003DMT400040686 | SwissProt | 2021-04-01 | Q9ZUU8 | 1.38e-29 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
