Gene
Taestivum Traes 1BL 34EDFA664
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_1BL_34EDFA664 Traes_1BL_34EDFA664 |
ta_iwgsc_1bl_v1_3878348 | 331 | 3886 | 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_1BL_34EDFA664.1 Traes_1BL_34EDFA664.1 PAC:31751680 |
Low | No | 233 | Get ORF Coding potential... Type: noncoding Potential: -1.344 Folding energies... MFEI: -32.575 AMFE: -0.638 GC content %: 51.073 | |
| Taestivum_Traes_1BL_34EDFA664.5 Traes_1BL_34EDFA664.5 PAC:31751677 |
Low | No | 318 | Get ORF Coding potential... Type: noncoding Potential: -0.712 Folding energies... MFEI: -28.396 AMFE: -0.510 GC content %: 55.660 | |
| Taestivum_Traes_1BL_34EDFA664.6 Traes_1BL_34EDFA664.6 PAC:31751678 |
Low | No | 276 | Get ORF Coding potential... Type: noncoding Potential: -1.054 Folding energies... MFEI: -28.080 AMFE: -0.558 GC content %: 50.362 | |
| Taestivum_Traes_1BL_34EDFA664.7 Traes_1BL_34EDFA664.7 PAC:31751679 |
High | No | 285 | Get ORF Coding potential... Type: noncoding Potential: -0.998 Folding energies... MFEI: -48.316 AMFE: -0.675 GC content %: 71.579 |
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_1BL_34EDFA664.1 | RepBase (RepeatMasker) | 2014-01-31 | LINE1-64_SBi | |
| Taestivum_Traes_1BL_34EDFA664.5 | RepBase (RepeatMasker) | 2014-01-31 | LINE1-21_SBi | |
| Taestivum_Traes_1BL_34EDFA664.6 | RepBase (RepeatMasker) | 2014-01-31 | LINE1-29_ZM |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
