Mpolymorpha Mapoly0787s0002
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
|
|---|---|---|---|---|---|---|
| Mpolymorpha_Mapoly0787s0002 [ Mapoly0787s0002] |
scaffold_787 | 4606 | 6336 | v3.1 | Marchantia polymorpha (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
|
|---|---|---|---|---|---|---|
| Mpolymorpha_Mapoly0787s0002.1 Mapoly0787s0002.1 |
Low | No | 1577 | OG0013521 | Get ORF Coding potential... Type: noncoding Potential: -0.962 Folding energies... MFEI: -28.656 AMFE: -0.603 GC content %: 47.495 | |
| Mpolymorpha_Mapoly0787s0002.2 Mapoly0787s0002.2 |
Low | No | 1414 | OG0013521 | Get ORF Coding potential... Type: noncoding Potential: -0.967 Folding energies... MFEI: -28.338 AMFE: -0.594 GC content %: 47.737 | |
| Mpolymorpha_Mapoly0787s0002.3 Mapoly0787s0002.3 |
High | No | 1238 | OG0013521 | Get ORF Coding potential... Type: noncoding Potential: -0.933 Folding energies... MFEI: -27.456 AMFE: -0.575 GC content %: 47.738 | |
| Mpolymorpha_Mapoly0787s0002.4 Mapoly0787s0002.4 |
High | No | 782 | OG0013521 | Get ORF Coding potential... Type: noncoding Potential: -0.894 Folding energies... MFEI: -26.752 AMFE: -0.546 GC content %: 48.977 |
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 |
|---|---|---|---|---|
| Mpolymorpha_Mapoly0787s0002.2 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Copia | |
| Mpolymorpha_Mapoly0787s0002.1 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Copia |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
