Ncolorata Nycol.A00708
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.A00708 [ Nycol.A00708] |
GWHAAYW00000001 | 13267748 | 13272630 | v1.2 | Nymphaea colorata (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
|
|---|---|---|---|---|---|---|
| Ncolorata_Nycol.A00708.1 Nycol.A00708.1 |
Low | No | 1247 | OG0006073 | Get ORF Coding potential... Type: noncoding Potential: -0.664 Folding energies... MFEI: -27.049 AMFE: -0.602 GC content %: 44.908 | |
| Ncolorata_Nycol.A00708.2 Nycol.A00708.2 |
Low | No | 1177 | OG0006073 | Get ORF Coding potential... Type: noncoding Potential: -0.651 Folding energies... MFEI: -27.732 AMFE: -0.608 GC content %: 45.624 | |
| Ncolorata_Nycol.A00708.3 Nycol.A00708.3 |
Low | No | 1202 | OG0006073 | Get ORF Coding potential... Type: noncoding Potential: -0.656 Folding energies... MFEI: -27.088 AMFE: -0.597 GC content %: 45.341 | |
| Ncolorata_Nycol.A00708.4 Nycol.A00708.4 |
Low | No | 1132 | OG0006073 | Get ORF Coding potential... Type: noncoding Potential: -0.642 Folding energies... MFEI: -28.322 AMFE: -0.614 GC content %: 46.113 | |
| Ncolorata_Nycol.A00708.5 Nycol.A00708.5 |
High | No | 881 | OG0006073 | Get ORF Coding potential... Type: noncoding Potential: -0.683 Folding energies... MFEI: -26.163 AMFE: -0.591 GC content %: 44.268 | |
| Ncolorata_Nycol.A00708.6 Nycol.A00708.6 |
Low | No | 940 | OG0006073 | Get ORF Coding potential... Type: noncoding Potential: -0.595 Folding energies... MFEI: -25.777 AMFE: -0.607 GC content %: 42.447 |
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.A00708.6 | SwissProt | 2021-04-01 | Q04406 | 1.6e-4 |
| Ncolorata_Nycol.A00708.1 | SwissProt | 2021-04-01 | Q04406 | 2.38e-4 |
| Ncolorata_Nycol.A00708.2 | SwissProt | 2021-04-01 | Q04406 | 1.47e-4 |
| Ncolorata_Nycol.A00708.3 | SwissProt | 2021-04-01 | Q04406 | 2.27e-4 |
| Ncolorata_Nycol.A00708.4 | SwissProt | 2021-04-01 | Q04406 | 2.09e-4 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
