Gene
Taestivum Traes 2BL 9663FAF50
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_2BL_9663FAF50 Traes_2BL_9663FAF50 |
ta_iwgsc_2bl_v1_1818501 | 274 | 4002 | 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_2BL_9663FAF50.2 Traes_2BL_9663FAF50.2 PAC:31744825 |
Low | No | 1490 | Get ORF Coding potential... Type: noncoding Potential: -0.513 Folding energies... MFEI: -29.530 AMFE: -0.694 GC content %: 42.550 | |
| Taestivum_Traes_2BL_9663FAF50.4 Traes_2BL_9663FAF50.4 PAC:31744827 |
Low | No | 1045 | Get ORF Coding potential... Type: noncoding Potential: -0.446 Folding energies... MFEI: -32.335 AMFE: -0.719 GC content %: 44.976 | |
| Taestivum_Traes_2BL_9663FAF50.5 Traes_2BL_9663FAF50.5 PAC:31744828 |
Low | Yes | 2051 | Get ORF Coding potential... Type: noncoding Potential: -0.678 Folding energies... MFEI: -28.879 AMFE: -0.717 GC content %: 40.273 |
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_2BL_9663FAF50.5 | RepBase (RepeatMasker) | 2014-01-31 | JASON_TA | |
| Taestivum_Traes_2BL_9663FAF50.5 | Rfam | 11.0 | MIR1027 | 1.5e-6 |
| Taestivum_Traes_2BL_9663FAF50.2 | RepBase (RepeatMasker) | 2014-01-31 | JASON_TA | |
| Taestivum_Traes_2BL_9663FAF50.4 | RepBase (RepeatMasker) | 2014-01-31 | JASON_TA |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
