Spurpurea SapurV1A.0709s0090
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.0709s0090 [ SapurV1A.0709s0090] |
chr08 | 4095916 | 4098664 | 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.0709s0090.1 SapurV1A.0709s0090.1 |
High | No | 1443 | OG0004393 | Get ORF Coding potential... Type: noncoding Potential: -1.315 Folding energies... MFEI: -23.444 AMFE: -0.656 GC content %: 35.759 | |
| Spurpurea_SapurV1A.0709s0090.2 SapurV1A.0709s0090.2 |
Low | No | 475 | OG0004393 | Get ORF Coding potential... Type: noncoding Potential: -1.149 Folding energies... MFEI: -25.158 AMFE: -0.616 GC content %: 40.842 | |
| Spurpurea_SapurV1A.0709s0090.3 SapurV1A.0709s0090.3 |
High | No | 1245 | OG0004393 | Get ORF Coding potential... Type: noncoding Potential: -0.989 Folding energies... MFEI: -24.145 AMFE: -0.638 GC content %: 37.831 | |
| Spurpurea_SapurV1A.0709s0090.4 SapurV1A.0709s0090.4 |
Low | No | 1233 | OG0004393 | Get ORF Coding potential... Type: noncoding Potential: -0.988 Folding energies... MFEI: -24.161 AMFE: -0.635 GC content %: 38.037 | |
| Spurpurea_SapurV1A.0709s0090.5 SapurV1A.0709s0090.5 |
Low | No | 1098 | OG0004393 | Get ORF Coding potential... Type: noncoding Potential: -1.222 Folding energies... MFEI: -24.007 AMFE: -0.629 GC content %: 38.160 | |
| Spurpurea_SapurV1A.0709s0090.6 SapurV1A.0709s0090.6 |
Low | No | 1110 | OG0004393 | Get ORF Coding potential... Type: noncoding Potential: -1.238 Folding energies... MFEI: -23.928 AMFE: -0.631 GC content %: 37.928 | |
| Spurpurea_SapurV1A.0709s0090.7 SapurV1A.0709s0090.7 |
Low | No | 487 | OG0004393 | Get ORF Coding potential... Type: noncoding Potential: -1.151 Folding energies... MFEI: -25.113 AMFE: -0.624 GC content %: 40.246 |
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.0709s0090.7 | SwissProt | 2021-04-01 | Q4VBI2 | 2.56e-4 |
| Spurpurea_SapurV1A.0709s0090.2 | SwissProt | 2021-04-01 | Q4VBI2 | 2.1e-4 |
| Spurpurea_SapurV1A.0709s0090.4 | SwissProt | 2021-04-01 | Q4VBI2 | 1.0e-3 |
| Spurpurea_SapurV1A.0709s0090.5 | SwissProt | 2021-04-01 | Q4VBI2 | 7.97e-4 |
| Spurpurea_SapurV1A.0709s0090.6 | SwissProt | 2021-04-01 | Q4VBI2 | 1.0e-3 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
