Gene
Taestivum Traes 3B 469516ECB
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_3B_469516ECB Traes_3B_469516ECB |
ta_iwgsc_3b_v1_10731934 | 671 | 11415 | 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_3B_469516ECB.3 Traes_3B_469516ECB.3 PAC:31963732 |
High | No | 1255 | Get ORF Coding potential... Type: noncoding Potential: -1.107 Folding energies... MFEI: -22.040 AMFE: -0.620 GC content %: 35.538 | |
| Taestivum_Traes_3B_469516ECB.4 Traes_3B_469516ECB.4 PAC:31963733 |
Low | No | 631 | Get ORF Coding potential... Type: noncoding Potential: -0.854 Folding energies... MFEI: -26.260 AMFE: -0.621 GC content %: 42.314 | |
| Taestivum_Traes_3B_469516ECB.5 Traes_3B_469516ECB.5 PAC:31963734 |
Low | No | 596 | Get ORF Coding potential... Type: noncoding Potential: -0.839 Folding energies... MFEI: -25.403 AMFE: -0.613 GC content %: 41.443 | |
| Taestivum_Traes_3B_469516ECB.6 Traes_3B_469516ECB.6 PAC:31963735 |
Low | No | 598 | Get ORF Coding potential... Type: noncoding Potential: -1.222 Folding energies... MFEI: -22.943 AMFE: -0.569 GC content %: 40.301 | |
| Taestivum_Traes_3B_469516ECB.7 Traes_3B_469516ECB.7 PAC:31963736 |
Low | No | 599 | Get ORF Coding potential... Type: noncoding Potential: -0.840 Folding energies... MFEI: -24.825 AMFE: -0.590 GC content %: 42.070 | |
| Taestivum_Traes_3B_469516ECB.8 Traes_3B_469516ECB.8 PAC:31963737 |
High | No | 390 | Get ORF Coding potential... Type: noncoding Potential: -1.044 Folding energies... MFEI: -29.462 AMFE: -0.583 GC content %: 50.513 |
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_3B_469516ECB.6 | RepBase (RepeatMasker) | 2014-01-31 | REP1_SB | |
| Taestivum_Traes_3B_469516ECB.7 | RepBase (RepeatMasker) | 2014-01-31 | REP1_SB | |
| Taestivum_Traes_3B_469516ECB.4 | RepBase (RepeatMasker) | 2014-01-31 | REP1_SB | |
| Taestivum_Traes_3B_469516ECB.5 | RepBase (RepeatMasker) | 2014-01-31 | REP1_SB |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
