Gene
Taestivum Traes 2BS 4A0079A45
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_2BS_4A0079A45 Traes_2BS_4A0079A45 |
ta_iwgsc_2bs_v1_5244617 | 648 | 4272 | 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_2BS_4A0079A45.1 Traes_2BS_4A0079A45.1 PAC:31969395 |
Low | No | 240 | Get ORF Coding potential... Type: noncoding Potential: -1.052 Folding energies... MFEI: -25.583 AMFE: -0.574 GC content %: 44.583 | |
| Taestivum_Traes_2BS_4A0079A45.5 Traes_2BS_4A0079A45.5 PAC:31969393 |
Low | No | 374 | Get ORF Coding potential... Type: noncoding Potential: -0.661 Folding energies... MFEI: -24.091 AMFE: -0.553 GC content %: 43.583 | |
| Taestivum_Traes_2BS_4A0079A45.6 Traes_2BS_4A0079A45.6 PAC:31969394 |
Low | No | 267 | Get ORF Coding potential... Type: noncoding Potential: -1.111 Folding energies... MFEI: -27.528 AMFE: -0.602 GC content %: 45.693 |
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_2BS_4A0079A45.5 | RepBase (RepeatMasker) | 2014-01-31 | HARB-4A_SBi | |
| Taestivum_Traes_2BS_4A0079A45.6 | RepBase (RepeatMasker) | 2014-01-31 | HARB-4A_SBi | |
| Taestivum_Traes_2BS_4A0079A45.1 | RepBase (RepeatMasker) | 2014-01-31 | HARB-4A_SBi |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
