Gene
Taestivum Traes 1DL 2146C3C8A
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_1DL_2146C3C8A Traes_1DL_2146C3C8A |
ta_iwgsc_1dl_v1_2246132 | 281 | 9432 | 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_1DL_2146C3C8A.15 Traes_1DL_2146C3C8A.15 PAC:31966237 |
Low | No | 2786 | Get ORF Coding potential... Type: noncoding Potential: -0.112 Folding energies... MFEI: -26.906 AMFE: -0.681 GC content %: 39.519 | |
| Taestivum_Traes_1DL_2146C3C8A.16 Traes_1DL_2146C3C8A.16 PAC:31966238 |
Low | No | 2927 | Get ORF Coding potential... Type: noncoding Potential: -0.115 Folding energies... MFEI: -28.528 AMFE: -0.681 GC content %: 41.920 | |
| Taestivum_Traes_1DL_2146C3C8A.17 Traes_1DL_2146C3C8A.17 PAC:31966239 |
Low | No | 3469 | Get ORF Coding potential... Type: noncoding Potential: -0.059 Folding energies... MFEI: -27.988 AMFE: -0.680 GC content %: 41.136 | |
| Taestivum_Traes_1DL_2146C3C8A.18 Traes_1DL_2146C3C8A.18 PAC:31966240 |
Low | No | 863 | Get ORF Coding potential... Type: noncoding Potential: -1.055 Folding energies... MFEI: -24.728 AMFE: -0.651 GC content %: 38.007 |
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_1DL_2146C3C8A.17 | RepBase (RepeatMasker) | 2014-01-31 | L1_TD | |
| Taestivum_Traes_1DL_2146C3C8A.18 | RepBase (RepeatMasker) | 2014-01-31 | L1_TD | |
| Taestivum_Traes_1DL_2146C3C8A.15 | RepBase (RepeatMasker) | 2014-01-31 | L1_TD | |
| Taestivum_Traes_1DL_2146C3C8A.16 | RepBase (RepeatMasker) | 2014-01-31 | L1_TD |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
