Gmustelinum Gomus.D12G070000
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
|
|---|---|---|---|---|---|---|
| Gmustelinum_Gomus.D12G070000 [ Gomus.D12G070000] |
D12 | 11486120 | 11489752 | v1.1 | Gossypium mustelinum (Phytozome 13) | 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
|
|---|---|---|---|---|---|---|
| Gmustelinum_Gomus.D12G070000.2 Gomus.D12G070000.2 |
Low | No | 1794 | OG0001396 | Get ORF Coding potential... Type: noncoding Potential: -1.209 Folding energies... MFEI: -28.283 AMFE: -0.724 GC content %: 39.075 | |
| Gmustelinum_Gomus.D12G070000.4 Gomus.D12G070000.4 |
Low | No | 2154 | OG0001396 | Get ORF Coding potential... Type: noncoding Potential: -1.232 Folding energies... MFEI: -26.374 AMFE: -0.719 GC content %: 36.676 | |
| Gmustelinum_Gomus.D12G070000.5 Gomus.D12G070000.5 |
High | No | 872 | OG0001396 | Get ORF Coding potential... Type: noncoding Potential: -1.078 Folding energies... MFEI: -27.064 AMFE: -0.663 GC content %: 40.826 |
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 |
|---|---|---|---|---|
| Gmustelinum_Gomus.D12G070000.2 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Copia | |
| Gmustelinum_Gomus.D12G070000.4 | 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).
