Spurpurea SapurV1A.0215s0110
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
|
|---|---|---|---|---|---|---|
| Spurpurea_SapurV1A.0215s0110 [ SapurV1A.0215s0110] |
Scaffold0215 | 128752 | 131326 | v1 | Salix purpurea (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
|
|---|---|---|---|---|---|---|
| Spurpurea_SapurV1A.0215s0110.1 SapurV1A.0215s0110.1 |
Low | No | 1125 | OG0003496 | Get ORF Coding potential... Type: noncoding Potential: -0.665 Folding energies... MFEI: -23.467 AMFE: -0.611 GC content %: 38.400 | |
| Spurpurea_SapurV1A.0215s0110.2 SapurV1A.0215s0110.2 |
Low | No | 996 | OG0003496 | Get ORF Coding potential... Type: noncoding Potential: -0.638 Folding energies... MFEI: -23.303 AMFE: -0.617 GC content %: 37.751 | |
| Spurpurea_SapurV1A.0215s0110.3 SapurV1A.0215s0110.3 |
Low | No | 901 | OG0003496 | Get ORF Coding potential... Type: noncoding Potential: -0.614 Folding energies... MFEI: -22.986 AMFE: -0.569 GC content %: 40.400 | |
| Spurpurea_SapurV1A.0215s0110.4 SapurV1A.0215s0110.4 |
Low | No | 724 | OG0003496 | Get ORF Coding potential... Type: noncoding Potential: -0.558 Folding energies... MFEI: -22.362 AMFE: -0.578 GC content %: 38.674 | |
| Spurpurea_SapurV1A.0215s0110.5 SapurV1A.0215s0110.5 |
Low | No | 685 | OG0003496 | Get ORF Coding potential... Type: noncoding Potential: -0.542 Folding energies... MFEI: -22.146 AMFE: -0.525 GC content %: 42.190 | |
| Spurpurea_SapurV1A.0215s0110.6 SapurV1A.0215s0110.6 |
Low | No | 691 | OG0003496 | Get ORF Coding potential... Type: noncoding Potential: -0.545 Folding energies... MFEI: -21.621 AMFE: -0.535 GC content %: 40.376 | |
| Spurpurea_SapurV1A.0215s0110.7 SapurV1A.0215s0110.7 |
Low | No | 722 | OG0003496 | Get ORF Coding potential... Type: noncoding Potential: -0.557 Folding energies... MFEI: -22.521 AMFE: -0.557 GC content %: 40.443 | |
| Spurpurea_SapurV1A.0215s0110.8 SapurV1A.0215s0110.8 |
Low | No | 856 | OG0003496 | Get ORF Coding potential... Type: noncoding Potential: -0.602 Folding energies... MFEI: -22.220 AMFE: -0.575 GC content %: 38.668 |
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 |
|---|---|---|---|---|
| Spurpurea_SapurV1A.0215s0110.7 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Pao | |
| Spurpurea_SapurV1A.0215s0110.2 | RepBase (RepeatMasker) | 2014-01-31 | DNA; LTR/Pao | |
| Spurpurea_SapurV1A.0215s0110.8 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Pao | |
| Spurpurea_SapurV1A.0215s0110.3 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Pao | |
| Spurpurea_SapurV1A.0215s0110.4 | RepBase (RepeatMasker) | 2014-01-31 | DNA; LTR/Pao | |
| Spurpurea_SapurV1A.0215s0110.5 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Pao | |
| Spurpurea_SapurV1A.0215s0110.6 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Pao | |
| Spurpurea_SapurV1A.0215s0110.1 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Pao |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
