Spurpurea SapurV1A.0069s0290
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.0069s0290 [ SapurV1A.0069s0290] |
chr08 | 13306551 | 13307452 | 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.0069s0290.1 SapurV1A.0069s0290.1 |
Low | No | 814 | OG0006422 | Get ORF Coding potential... Type: noncoding Potential: -1.145 Folding energies... MFEI: -25.516 AMFE: -0.588 GC content %: 43.366 | |
| Spurpurea_SapurV1A.0069s0290.2 SapurV1A.0069s0290.2 |
High | No | 713 | OG0006422 | Get ORF Coding potential... Type: noncoding Potential: -1.077 Folding energies... MFEI: -25.526 AMFE: -0.571 GC content %: 44.741 | |
| Spurpurea_SapurV1A.0069s0290.3 SapurV1A.0069s0290.3 |
Low | No | 734 | OG0006422 | Get ORF Coding potential... Type: noncoding Potential: -1.085 Folding energies... MFEI: -25.858 AMFE: -0.584 GC content %: 44.278 | |
| Spurpurea_SapurV1A.0069s0290.4 SapurV1A.0069s0290.4 |
High | No | 719 | OG0006422 | Get ORF Coding potential... Type: noncoding Potential: -1.080 Folding energies... MFEI: -25.202 AMFE: -0.563 GC content %: 44.784 | |
| Spurpurea_SapurV1A.0069s0290.5 SapurV1A.0069s0290.5 |
Low | No | 822 | OG0006422 | Get ORF Coding potential... Type: noncoding Potential: -1.067 Folding energies... MFEI: -25.328 AMFE: -0.583 GC content %: 43.431 | |
| Spurpurea_SapurV1A.0069s0290.6 SapurV1A.0069s0290.6 |
Low | No | 642 | OG0006422 | Get ORF Coding potential... Type: noncoding Potential: -1.048 Folding energies... MFEI: -25.280 AMFE: -0.566 GC content %: 44.704 |
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.0069s0290.6 | RepBase (RepeatMasker) | 2014-01-31 | LINE/L1 | |
| Spurpurea_SapurV1A.0069s0290.1 | RepBase (RepeatMasker) | 2014-01-31 | LINE/L1 | |
| Spurpurea_SapurV1A.0069s0290.3 | RepBase (RepeatMasker) | 2014-01-31 | LINE/L1 | |
| Spurpurea_SapurV1A.0069s0290.5 | RepBase (RepeatMasker) | 2014-01-31 | LINE/L1 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
