Tdicoccoides TRIDC4BG004680
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_TRIDC4BG004680 [ TRIDC4BG004680] |
4B | 19788674 | 19799009 | 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_TRIDC4BG004680.10 TRIDC4BG004680.10 |
Low | No | 593 | OG0006639 | Get ORF Coding potential... Type: noncoding Potential: -0.610 Folding energies... MFEI: -37.892 AMFE: -0.657 GC content %: 57.673 | |
| Tdicoccoides_TRIDC4BG004680.11 TRIDC4BG004680.11 |
Low | No | 689 | OG0006639 | Get ORF Coding potential... Type: noncoding Potential: -0.693 Folding energies... MFEI: -36.647 AMFE: -0.677 GC content %: 54.136 | |
| Tdicoccoides_TRIDC4BG004680.12 TRIDC4BG004680.12 |
High | No | 845 | OG0006639 | Get ORF Coding potential... Type: noncoding Potential: -0.962 Folding energies... MFEI: -29.361 AMFE: -0.638 GC content %: 46.036 | |
| Tdicoccoides_TRIDC4BG004680.2 TRIDC4BG004680.2 |
Low | No | 830 | OG0006639 | Get ORF Coding potential... Type: noncoding Potential: -0.427 Folding energies... MFEI: -36.253 AMFE: -0.660 GC content %: 54.940 | |
| Tdicoccoides_TRIDC4BG004680.3 TRIDC4BG004680.3 |
Low | No | 745 | OG0009444 | Get ORF Coding potential... Type: noncoding Potential: -0.587 Folding energies... MFEI: -33.221 AMFE: -0.625 GC content %: 53.154 | |
| Tdicoccoides_TRIDC4BG004680.4 TRIDC4BG004680.4 |
Low | No | 1382 | OG0009444 | Get ORF Coding potential... Type: noncoding Potential: -1.148 Folding energies... MFEI: -25.514 AMFE: -0.614 GC content %: 41.534 | |
| Tdicoccoides_TRIDC4BG004680.5 TRIDC4BG004680.5 |
Low | No | 1376 | OG0009444 | Get ORF Coding potential... Type: noncoding Potential: -1.066 Folding energies... MFEI: -27.631 AMFE: -0.608 GC content %: 45.422 | |
| Tdicoccoides_TRIDC4BG004680.6 TRIDC4BG004680.6 |
High | No | 655 | OG0006639 | Get ORF Coding potential... Type: noncoding Potential: -0.979 Folding energies... MFEI: -33.084 AMFE: -0.647 GC content %: 51.145 | |
| Tdicoccoides_TRIDC4BG004680.7 TRIDC4BG004680.7 |
High | No | 635 | OG0009444 | Get ORF Coding potential... Type: noncoding Potential: -1.060 Folding energies... MFEI: -29.228 AMFE: -0.599 GC content %: 48.819 | |
| Tdicoccoides_TRIDC4BG004680.8 TRIDC4BG004680.8 |
High | No | 1207 | OG0009444 | Get ORF Coding potential... Type: noncoding Potential: -1.195 Folding energies... MFEI: -26.056 AMFE: -0.615 GC content %: 42.336 | |
| Tdicoccoides_TRIDC4BG004680.9 TRIDC4BG004680.9 |
Low | No | 850 | OG0006639 | Get ORF Coding potential... Type: noncoding Potential: -0.434 Folding energies... MFEI: -35.082 AMFE: -0.651 GC content %: 53.882 |
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_TRIDC4BG004680.2 | SwissProt | 2021-04-01 | Q5ZM20 | 1.33e-5 |
| Tdicoccoides_TRIDC4BG004680.3 | SwissProt | 2021-04-01 | A5PJU7 | 1.17e-5 |
| Tdicoccoides_TRIDC4BG004680.9 | SwissProt | 2021-04-01 | Q5ZM20 | 1.43e-5 |
| Tdicoccoides_TRIDC4BG004680.4 | RepBase (RepeatMasker) | 2014-01-31 | LINE/L1 | |
| Tdicoccoides_TRIDC4BG004680.10 | SwissProt | 2021-04-01 | Q5ZM20 | 2.8e-4 |
| Tdicoccoides_TRIDC4BG004680.5 | RepBase (RepeatMasker) | 2014-01-31 | LINE/L1 | |
| Tdicoccoides_TRIDC4BG004680.11 | SwissProt | 2021-04-01 | Q5ZM20 | 6.95e-4 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
