Gene
Taestivum Traes 7BS C6132EBC7
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_7BS_C6132EBC7 Traes_7BS_C6132EBC7 |
ta_iwgsc_7bs_v1_3118215 | 1 | 2619 | Phytozome | v2.2 | Triticum_aestivum | Coding? No |
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_7BS_C6132EBC7.1 Traes_7BS_C6132EBC7.1 PAC:31902915 |
Low | No | 2271 | Get ORF Coding potential... Type: noncoding Potential: -1.128 Folding energies... MFEI: -28.177 AMFE: -0.664 GC content %: 42.404 | |
| Taestivum_Traes_7BS_C6132EBC7.2 Traes_7BS_C6132EBC7.2 PAC:31902914 |
Low | No | 2529 | Get ORF Coding potential... Type: noncoding Potential: -1.134 Folding energies... MFEI: -28.142 AMFE: -0.676 GC content %: 41.637 | |
| Taestivum_Traes_7BS_C6132EBC7.3 Traes_7BS_C6132EBC7.3 PAC:31902917 |
High | No | 206 | Get ORF Coding potential... Type: noncoding Potential: -1.012 Folding energies... MFEI: -16.214 AMFE: -0.402 GC content %: 40.291 | |
| Taestivum_Traes_7BS_C6132EBC7.4 Traes_7BS_C6132EBC7.4 PAC:31902918 |
Low | No | 2254 | Get ORF Coding potential... Type: noncoding Potential: -1.128 Folding energies... MFEI: -27.697 AMFE: -0.658 GC content %: 42.103 | |
| Taestivum_Traes_7BS_C6132EBC7.5 Traes_7BS_C6132EBC7.5 PAC:31902916 |
Low | No | 1091 | Get ORF Coding potential... Type: noncoding Potential: -1.069 Folding energies... MFEI: -29.753 AMFE: -0.673 GC content %: 44.180 |
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_7BS_C6132EBC7.5 | RepBase (RepeatMasker) | 2014-01-31 | LINE1-25_ZM | |
| Taestivum_Traes_7BS_C6132EBC7.1 | RepBase (RepeatMasker) | 2014-01-31 | LINE1-25_ZM | |
| Taestivum_Traes_7BS_C6132EBC7.2 | RepBase (RepeatMasker) | 2014-01-31 | LINE1-25_ZM | |
| Taestivum_Traes_7BS_C6132EBC7.4 | RepBase (RepeatMasker) | 2014-01-31 | LINE1-25_ZM |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
