Gene
Taestivum Traes 5BL 81C5C85C4
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_81C5C85C4 Traes_5BL_81C5C85C4 |
ta_iwgsc_5bl_v1_10819104 | 7413 | 11704 | 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_81C5C85C4.11 Traes_5BL_81C5C85C4.11 PAC:31802590 |
High | No | 959 | Get ORF Coding potential... Type: noncoding Potential: -0.279 Folding energies... MFEI: -24.891 AMFE: -0.607 GC content %: 40.980 | |
| Taestivum_Traes_5BL_81C5C85C4.12 Traes_5BL_81C5C85C4.12 PAC:31802591 |
Low | No | 1937 | Get ORF Coding potential... Type: noncoding Potential: -0.244 Folding energies... MFEI: -27.821 AMFE: -0.652 GC content %: 42.695 | |
| Taestivum_Traes_5BL_81C5C85C4.13 Traes_5BL_81C5C85C4.13 PAC:31802592 |
Low | No | 1701 | Get ORF Coding potential... Type: noncoding Potential: -0.756 Folding energies... MFEI: -26.002 AMFE: -0.655 GC content %: 39.683 | |
| Taestivum_Traes_5BL_81C5C85C4.18 Traes_5BL_81C5C85C4.18 PAC:31802597 |
Low | No | 709 | Get ORF Coding potential... Type: noncoding Potential: -1.000 Folding energies... MFEI: -24.217 AMFE: -0.600 GC content %: 40.339 |
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_81C5C85C4.12 | RepBase (RepeatMasker) | 2014-01-31 | Copia32-ZM_I-int | |
| Taestivum_Traes_5BL_81C5C85C4.13 | RepBase (RepeatMasker) | 2014-01-31 | Copia32-ZM_I-int | |
| Taestivum_Traes_5BL_81C5C85C4.18 | RepBase (RepeatMasker) | 2014-01-31 | STOWAWAY41_OS |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
