Atauschii AET1Gv20938700
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_AET1Gv20938700 [ AET1Gv20938700] |
1D | 472674165 | 472719701 | 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_AET1Gv20938700.12 AET1Gv20938700.12 |
Low | No | 323 | OG0006803 | Get ORF Coding potential... Type: noncoding Potential: -1.036 Folding energies... MFEI: -22.105 AMFE: -0.567 GC content %: 39.009 | |
| Atauschii_AET1Gv20938700.13 AET1Gv20938700.13 |
Low | No | 323 | OG0006803 | Get ORF Coding potential... Type: noncoding Potential: -1.036 Folding energies... MFEI: -22.105 AMFE: -0.567 GC content %: 39.009 | |
| Atauschii_AET1Gv20938700.14 AET1Gv20938700.14 |
Low | No | 449 | OG0006803 | Get ORF Coding potential... Type: noncoding Potential: -0.882 Folding energies... MFEI: -20.423 AMFE: -0.524 GC content %: 38.976 | |
| Atauschii_AET1Gv20938700.15 AET1Gv20938700.15 |
Low | No | 228 | OG0069311 | Get ORF Coding potential... Type: noncoding Potential: -1.127 Folding energies... MFEI: -21.974 AMFE: -0.576 GC content %: 38.158 | |
| Atauschii_AET1Gv20938700.16 AET1Gv20938700.16 |
High | No | 271 | OG0006803 | Get ORF Coding potential... Type: noncoding Potential: -0.999 Folding energies... MFEI: -22.435 AMFE: -0.553 GC content %: 40.590 | |
| Atauschii_AET1Gv20938700.17 AET1Gv20938700.17 |
Low | No | 833 | OG0069312 | Get ORF Coding potential... Type: noncoding Potential: -1.269 Folding energies... MFEI: -25.134 AMFE: -0.572 GC content %: 43.938 | |
| Atauschii_AET1Gv20938700.23 AET1Gv20938700.23 |
High | No | 203 | OG0009766 | Get ORF Coding potential... Type: noncoding Potential: -0.874 Folding energies... MFEI: -23.300 AMFE: -0.606 GC content %: 38.424 | |
| Atauschii_AET1Gv20938700.24 AET1Gv20938700.24 |
High | No | 261 | OG0009766 | Get ORF Coding potential... Type: noncoding Potential: -0.822 Folding energies... MFEI: -22.069 AMFE: -0.549 GC content %: 40.230 | |
| Atauschii_AET1Gv20938700.25 AET1Gv20938700.25 |
High | No | 263 | OG0009766 | Get ORF Coding potential... Type: noncoding Potential: -0.850 Folding energies... MFEI: -23.726 AMFE: -0.578 GC content %: 41.065 | |
| Atauschii_AET1Gv20938700.26 AET1Gv20938700.26 |
High | No | 259 | OG0009766 | Get ORF Coding potential... Type: noncoding Potential: -0.824 Folding energies... MFEI: -22.046 AMFE: -0.544 GC content %: 40.541 | |
| Atauschii_AET1Gv20938700.29 AET1Gv20938700.29 |
High | No | 240 | OG0069313 | Get ORF Coding potential... Type: noncoding Potential: -1.123 Folding energies... MFEI: -12.792 AMFE: -0.292 GC content %: 43.750 | |
| Atauschii_AET1Gv20938700.8 AET1Gv20938700.8 |
Low | Yes | 1549 | OG0006803 | Get ORF Coding potential... Type: noncoding Potential: -1.236 Folding energies... MFEI: -24.558 AMFE: -0.646 GC content %: 38.025 |
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_AET1Gv20938700.14 | RepBase (RepeatMasker) | 2014-01-31 | SINE/tRNA | |
| Atauschii_AET1Gv20938700.15 | RepBase (RepeatMasker) | 2014-01-31 | SINE/tRNA | |
| Atauschii_AET1Gv20938700.17 | RepBase (RepeatMasker) | 2014-01-31 | DNA/PIF-Harbinger | |
| Atauschii_AET1Gv20938700.8 | Rfam | 14.6 | MIR1122 | 6.6e-11 |
| Atauschii_AET1Gv20938700.8 | RepBase (RepeatMasker) | 2014-01-31 | DNA; SINE/tRNA | |
| Atauschii_AET1Gv20938700.12 | RepBase (RepeatMasker) | 2014-01-31 | SINE/tRNA | |
| Atauschii_AET1Gv20938700.13 | RepBase (RepeatMasker) | 2014-01-31 | SINE/tRNA |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
