Ncolorata Nycol.D01287
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
|
|---|---|---|---|---|---|---|
| Ncolorata_Nycol.D01287 [ Nycol.D01287] |
GWHAAYW00000004 | 22095242 | 22100907 | v1.2 | Nymphaea colorata (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
|
|---|---|---|---|---|---|---|
| Ncolorata_Nycol.D01287.2 Nycol.D01287.2 |
Low | No | 1222 | OG0008597 | Get ORF Coding potential... Type: noncoding Potential: -0.946 Folding energies... MFEI: -28.576 AMFE: -0.641 GC content %: 44.599 | |
| Ncolorata_Nycol.D01287.4 Nycol.D01287.4 |
Low | No | 1185 | OG0008597 | Get ORF Coding potential... Type: noncoding Potential: -0.880 Folding energies... MFEI: -28.675 AMFE: -0.638 GC content %: 44.979 | |
| Ncolorata_Nycol.D01287.6 Nycol.D01287.6 |
Low | No | 1433 | OG0008597 | Get ORF Coding potential... Type: noncoding Potential: -0.916 Folding energies... MFEI: -28.186 AMFE: -0.685 GC content %: 41.172 | |
| Ncolorata_Nycol.D01287.7 Nycol.D01287.7 |
Low | No | 1143 | OG0008597 | Get ORF Coding potential... Type: noncoding Potential: -0.872 Folding energies... MFEI: -28.443 AMFE: -0.676 GC content %: 42.082 | |
| Ncolorata_Nycol.D01287.9 Nycol.D01287.9 |
Low | No | 920 | OG0008597 | Get ORF Coding potential... Type: noncoding Potential: -0.886 Folding energies... MFEI: -27.043 AMFE: -0.622 GC content %: 43.478 |
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 |
|---|---|---|---|---|
| Ncolorata_Nycol.D01287.7 | SwissProt | 2021-04-01 | A3DF24 | 1.1e-7 |
| Ncolorata_Nycol.D01287.9 | SwissProt | 2021-04-01 | A3DF24 | 9.16e-8 |
| Ncolorata_Nycol.D01287.2 | SwissProt | 2021-04-01 | A3DF24 | 1.77e-7 |
| Ncolorata_Nycol.D01287.4 | SwissProt | 2021-04-01 | A3DF24 | 1.19e-7 |
| Ncolorata_Nycol.D01287.6 | SwissProt | 2021-04-01 | A3DF24 | 1.7e-7 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
