Gene
Taestivum Traes 5BL E0966FFC5
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 | Source | Assembly | Species | Details
|
|---|---|---|---|---|---|---|---|
| Taestivum_Traes_5BL_E0966FFC5 Traes_5BL_E0966FFC5 |
ta_iwgsc_5bl_v1_10922111 | 2 | 11382 | Phytozome | v2.2 | Triticum_aestivum | 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 | Sequence | Details
|
|---|---|---|---|---|---|
| Taestivum_Traes_5BL_E0966FFC5.10 Traes_5BL_E0966FFC5.10 PAC:31913911 |
Low | No | 2366 | Get ORF Coding potential... Type: noncoding Potential: -1.225 Folding energies... MFEI: -26.615 AMFE: -0.620 GC content %: 42.942 | |
| Taestivum_Traes_5BL_E0966FFC5.11 Traes_5BL_E0966FFC5.11 PAC:31913910 |
Low | No | 2627 | Get ORF Coding potential... Type: noncoding Potential: -1.230 Folding energies... MFEI: -26.947 AMFE: -0.618 GC content %: 43.586 | |
| Taestivum_Traes_5BL_E0966FFC5.12 Traes_5BL_E0966FFC5.12 PAC:31913914 |
Low | No | 2573 | Get ORF Coding potential... Type: noncoding Potential: -1.229 Folding energies... MFEI: -26.867 AMFE: -0.618 GC content %: 43.451 | |
| Taestivum_Traes_5BL_E0966FFC5.13 Traes_5BL_E0966FFC5.13 PAC:31913913 |
Low | No | 2068 | Get ORF Coding potential... Type: noncoding Potential: -1.218 Folding energies... MFEI: -27.360 AMFE: -0.616 GC content %: 44.439 | |
| Taestivum_Traes_5BL_E0966FFC5.6 Traes_5BL_E0966FFC5.6 PAC:31913909 |
Low | Yes | 4744 | Get ORF Coding potential... Type: noncoding Potential: -0.879 Folding energies... MFEI: -26.233 AMFE: -0.628 GC content %: 41.758 | |
| Taestivum_Traes_5BL_E0966FFC5.7 Traes_5BL_E0966FFC5.7 PAC:31913912 |
Low | Yes | 3183 | Get ORF Coding potential... Type: noncoding Potential: -1.303 Folding energies... MFEI: -25.837 AMFE: -0.648 GC content %: 39.899 | |
| Taestivum_Traes_5BL_E0966FFC5.8 Traes_5BL_E0966FFC5.8 PAC:31913907 |
Low | No | 1175 | Get ORF Coding potential... Type: noncoding Potential: -1.178 Folding energies... MFEI: -26.791 AMFE: -0.586 GC content %: 45.702 | |
| Taestivum_Traes_5BL_E0966FFC5.9 Traes_5BL_E0966FFC5.9 PAC:31913908 |
Low | No | 1703 | Get ORF Coding potential... Type: noncoding Potential: -1.207 Folding energies... MFEI: -27.733 AMFE: -0.623 GC content %: 44.510 |
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 |
|---|---|---|---|---|
| Taestivum_Traes_5BL_E0966FFC5.8 | RepBase (RepeatMasker) | 2014-01-31 | DNA-3-3_ZM | |
| Taestivum_Traes_5BL_E0966FFC5.10 | RepBase (RepeatMasker) | 2014-01-31 | DNA-3-3_ZM | |
| Taestivum_Traes_5BL_E0966FFC5.9 | RepBase (RepeatMasker) | 2014-01-31 | DNA-3-3_ZM | |
| Taestivum_Traes_5BL_E0966FFC5.11 | RepBase (RepeatMasker) | 2014-01-31 | SINE2-1_ZM | |
| Taestivum_Traes_5BL_E0966FFC5.12 | RepBase (RepeatMasker) | 2014-01-31 | DNA-3-3_ZM | |
| Taestivum_Traes_5BL_E0966FFC5.13 | RepBase (RepeatMasker) | 2014-01-31 | SINE2-1_ZM | |
| Taestivum_Traes_5BL_E0966FFC5.6 | Rfam | 11.0 | MIR1122 | 3.7e-5 |
| Taestivum_Traes_5BL_E0966FFC5.7 | RepBase (RepeatMasker) | 2014-01-31 | HADES_TA | |
| Taestivum_Traes_5BL_E0966FFC5.7 | Rfam | 11.0 | MIR1122 | 1.0e-9 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
