Tdicoccoides TRIDC1BG030550
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
|
|---|---|---|---|---|---|---|
| Tdicoccoides_TRIDC1BG030550 [ TRIDC1BG030550] |
1B | 333804130 | 333808691 | v1 | Triticum dicoccoides (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
|
|---|---|---|---|---|---|---|
| Tdicoccoides_TRIDC1BG030550.11 TRIDC1BG030550.11 |
Low | No | 1621 | OG0006583 | Get ORF Coding potential... Type: noncoding Potential: -1.084 Folding energies... MFEI: -29.352 AMFE: -0.625 GC content %: 46.946 | |
| Tdicoccoides_TRIDC1BG030550.12 TRIDC1BG030550.12 |
Low | No | 1829 | OG0006583 | Get ORF Coding potential... Type: noncoding Potential: -1.096 Folding energies... MFEI: -29.371 AMFE: -0.640 GC content %: 45.872 | |
| Tdicoccoides_TRIDC1BG030550.13 TRIDC1BG030550.13 |
Low | No | 1808 | OG0006583 | Get ORF Coding potential... Type: noncoding Potential: -1.095 Folding energies... MFEI: -29.358 AMFE: -0.641 GC content %: 45.796 | |
| Tdicoccoides_TRIDC1BG030550.14 TRIDC1BG030550.14 |
Low | No | 1538 | OG0006583 | Get ORF Coding potential... Type: noncoding Potential: -1.253 Folding energies... MFEI: -27.341 AMFE: -0.647 GC content %: 42.263 | |
| Tdicoccoides_TRIDC1BG030550.15 TRIDC1BG030550.15 |
Low | No | 1802 | OG0006583 | Get ORF Coding potential... Type: noncoding Potential: -1.094 Folding energies... MFEI: -29.351 AMFE: -0.640 GC content %: 45.838 | |
| Tdicoccoides_TRIDC1BG030550.16 TRIDC1BG030550.16 |
Low | No | 1240 | OG0006583 | Get ORF Coding potential... Type: noncoding Potential: -1.039 Folding energies... MFEI: -31.411 AMFE: -0.639 GC content %: 49.194 |
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 |
|---|---|---|---|---|
| Tdicoccoides_TRIDC1BG030550.13 | RepBase (RepeatMasker) | 2014-01-31 | LTR/ERV1 | |
| Tdicoccoides_TRIDC1BG030550.14 | RepBase (RepeatMasker) | 2014-01-31 | LTR/ERV1 | |
| Tdicoccoides_TRIDC1BG030550.15 | RepBase (RepeatMasker) | 2014-01-31 | LTR/ERV1 | |
| Tdicoccoides_TRIDC1BG030550.16 | RepBase (RepeatMasker) | 2014-01-31 | LTR/ERV1 | |
| Tdicoccoides_TRIDC1BG030550.11 | RepBase (RepeatMasker) | 2014-01-31 | LTR/ERV1 | |
| Tdicoccoides_TRIDC1BG030550.12 | RepBase (RepeatMasker) | 2014-01-31 | LTR/ERV1 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
