Omeridionalis OMERI11G07020
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
|
|---|---|---|---|---|---|---|
| Omeridionalis_OMERI11G07020 [ OMERI11G07020] |
11 | 7248674 | 7259797 | v1.3 | Oryza meridionalis (Ensembl Plants 51) | 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
|
|---|---|---|---|---|---|---|
| Omeridionalis_OMERI11G07020.1 OMERI11G07020.1 |
Low | No | 2991 | OG0006352 | Get ORF Coding potential... Type: noncoding Potential: -1.290 Folding energies... MFEI: -27.024 AMFE: -0.660 GC content %: 40.956 | |
| Omeridionalis_OMERI11G07020.2 OMERI11G07020.2 |
Low | No | 2244 | OG0006352 | Get ORF Coding potential... Type: noncoding Potential: -1.269 Folding energies... MFEI: -27.152 AMFE: -0.643 GC content %: 42.246 | |
| Omeridionalis_OMERI11G07020.3 OMERI11G07020.3 |
High | No | 1588 | OG0006352 | Get ORF Coding potential... Type: noncoding Potential: -1.236 Folding energies... MFEI: -28.476 AMFE: -0.631 GC content %: 45.151 | |
| Omeridionalis_OMERI11G07020.4 OMERI11G07020.4 |
Low | No | 411 | OG0006352 | Get ORF Coding potential... Type: noncoding Potential: -0.888 Folding energies... MFEI: -40.000 AMFE: -0.685 GC content %: 58.394 | |
| Omeridionalis_OMERI11G07020.6 OMERI11G07020.6 |
Low | No | 676 | OG0006352 | Get ORF Coding potential... Type: noncoding Potential: -1.168 Folding energies... MFEI: -27.840 AMFE: -0.629 GC content %: 44.231 | |
| Omeridionalis_OMERI11G07020.7 OMERI11G07020.7 |
High | No | 252 | OG0006352 | Get ORF Coding potential... Type: noncoding Potential: -1.109 Folding energies... MFEI: -43.849 AMFE: -0.674 GC content %: 65.079 |
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 |
|---|---|---|---|---|
| Omeridionalis_OMERI11G07020.1 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway; LINE/R2 | |
| Omeridionalis_OMERI11G07020.2 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Omeridionalis_OMERI11G07020.4 | RepBase (RepeatMasker) | 2014-01-31 | LINE/L1 | |
| Omeridionalis_OMERI11G07020.6 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
