Atauschii AET5Gv20648700
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 | Assembly | Species | Details
|
|---|---|---|---|---|---|---|
| Atauschii_AET5Gv20648700 [ AET5Gv20648700] |
5D | 392934059 | 392939552 | v4 | Aegilops tauschii (Ensembl Plants 51) | 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 | Orthologous group | Sequence | Details
|
|---|---|---|---|---|---|---|
| Atauschii_AET5Gv20648700.1 AET5Gv20648700.1 |
High | No | 408 | OG0000401 | Get ORF Coding potential... Type: noncoding Potential: -1.055 Folding energies... MFEI: -27.672 AMFE: -0.634 GC content %: 43.627 | |
| Atauschii_AET5Gv20648700.11 AET5Gv20648700.11 |
High | No | 1155 | OG0000401 | Get ORF Coding potential... Type: noncoding Potential: -0.324 Folding energies... MFEI: -35.403 AMFE: -0.657 GC content %: 53.853 | |
| Atauschii_AET5Gv20648700.16 AET5Gv20648700.16 |
High | No | 876 | OG0010073 | Get ORF Coding potential... Type: noncoding Potential: -0.394 Folding energies... MFEI: -36.541 AMFE: -0.623 GC content %: 58.676 | |
| Atauschii_AET5Gv20648700.17 AET5Gv20648700.17 |
High | No | 873 | OG0010073 | Get ORF Coding potential... Type: noncoding Potential: -0.393 Folding energies... MFEI: -36.884 AMFE: -0.629 GC content %: 58.648 | |
| Atauschii_AET5Gv20648700.2 AET5Gv20648700.2 |
High | No | 796 | OG0000401 | Get ORF Coding potential... Type: noncoding Potential: -0.363 Folding energies... MFEI: -28.141 AMFE: -0.647 GC content %: 43.467 | |
| Atauschii_AET5Gv20648700.20 AET5Gv20648700.20 |
High | No | 581 | OG0000401 | Get ORF Coding potential... Type: noncoding Potential: -0.860 Folding energies... MFEI: -40.964 AMFE: -0.657 GC content %: 62.306 | |
| Atauschii_AET5Gv20648700.22 AET5Gv20648700.22 |
Low | No | 452 | OG0000401 | Get ORF Coding potential... Type: noncoding Potential: -0.898 Folding energies... MFEI: -43.562 AMFE: -0.648 GC content %: 67.257 | |
| Atauschii_AET5Gv20648700.3 AET5Gv20648700.3 |
Low | Yes | 2736 | OG0000401 | Get ORF Coding potential... Type: noncoding Potential: -0.674 Folding energies... MFEI: -25.914 AMFE: -0.614 GC content %: 42.215 | |
| Atauschii_AET5Gv20648700.6 AET5Gv20648700.6 |
Low | No | 942 | OG0000401 | Get ORF Coding potential... Type: noncoding Potential: -0.830 Folding energies... MFEI: -29.671 AMFE: -0.688 GC content %: 43.100 | |
| Atauschii_AET5Gv20648700.7 AET5Gv20648700.7 |
High | No | 1185 | OG0000401 | Get ORF Coding potential... Type: noncoding Potential: -0.332 Folding energies... MFEI: -34.641 AMFE: -0.654 GC content %: 52.996 | |
| Atauschii_AET5Gv20648700.8 AET5Gv20648700.8 |
High | No | 614 | OG0000401 | Get ORF Coding potential... Type: noncoding Potential: -0.487 Folding energies... MFEI: -26.678 AMFE: -0.609 GC content %: 43.811 |
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 |
|---|---|---|---|---|
| Atauschii_AET5Gv20648700.3 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Atauschii_AET5Gv20648700.6 | RepBase (RepeatMasker) | 2014-01-31 | SINE/tRNA | |
| Atauschii_AET5Gv20648700.22 | SwissProt | 2021-04-01 | Q54MV7 | 4.78e-4 |
| Atauschii_AET5Gv20648700.3 | Rfam | 14.6 | MIR1122 | 4.1e-5 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
