Atauschii AET2Gv21176000
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_AET2Gv21176000 [ AET2Gv21176000] |
2D | 617651909 | 617770432 | 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_AET2Gv21176000.10 AET2Gv21176000.10 |
Low | Yes | 1538 | OG0002885 | Get ORF Coding potential... Type: noncoding Potential: -1.322 Folding energies... MFEI: -24.213 AMFE: -0.642 GC content %: 37.711 | |
| Atauschii_AET2Gv21176000.11 AET2Gv21176000.11 |
High | No | 565 | OG0002885 | Get ORF Coding potential... Type: noncoding Potential: -1.228 Folding energies... MFEI: -26.000 AMFE: -0.597 GC content %: 43.540 | |
| Atauschii_AET2Gv21176000.12 AET2Gv21176000.12 |
High | No | 693 | OG0002885 | Get ORF Coding potential... Type: noncoding Potential: -1.039 Folding energies... MFEI: -22.468 AMFE: -0.556 GC content %: 40.404 | |
| Atauschii_AET2Gv21176000.2 AET2Gv21176000.2 |
Low | No | 759 | OG0016108 | Get ORF Coding potential... Type: noncoding Potential: -1.083 Folding energies... MFEI: -25.441 AMFE: -0.600 GC content %: 42.424 | |
| Atauschii_AET2Gv21176000.3 AET2Gv21176000.3 |
High | No | 432 | OG0016108 | Get ORF Coding potential... Type: noncoding Potential: -0.972 Folding energies... MFEI: -24.375 AMFE: -0.569 GC content %: 42.824 | |
| Atauschii_AET2Gv21176000.5 AET2Gv21176000.5 |
High | No | 1514 | OG0002885 | Get ORF Coding potential... Type: noncoding Potential: -1.231 Folding energies... MFEI: -31.202 AMFE: -0.665 GC content %: 46.896 | |
| Atauschii_AET2Gv21176000.6 AET2Gv21176000.6 |
High | No | 1472 | OG0002885 | Get ORF Coding potential... Type: noncoding Potential: -1.266 Folding energies... MFEI: -31.164 AMFE: -0.637 GC content %: 48.913 | |
| Atauschii_AET2Gv21176000.7 AET2Gv21176000.7 |
Low | Yes | 1200 | OG0002885 | Get ORF Coding potential... Type: noncoding Potential: -1.309 Folding energies... MFEI: -25.011 AMFE: -0.640 GC content %: 39.083 | |
| Atauschii_AET2Gv21176000.8 AET2Gv21176000.8 |
Low | Yes | 1231 | OG0002885 | Get ORF Coding potential... Type: noncoding Potential: -1.311 Folding energies... MFEI: -24.452 AMFE: -0.643 GC content %: 38.018 | |
| Atauschii_AET2Gv21176000.9 AET2Gv21176000.9 |
Low | Yes | 1152 | OG0002885 | Get ORF Coding potential... Type: noncoding Potential: -1.307 Folding energies... MFEI: -25.286 AMFE: -0.659 GC content %: 38.368 |
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_AET2Gv21176000.10 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Atauschii_AET2Gv21176000.2 | RepBase (RepeatMasker) | 2014-01-31 | DNA/hAT-Ac | |
| Atauschii_AET2Gv21176000.10 | Rfam | 14.6 | MIR1122 | 9.1e-8 |
| Atauschii_AET2Gv21176000.7 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Atauschii_AET2Gv21176000.7 | Rfam | 14.6 | MIR1122 | 7.1e-8 |
| Atauschii_AET2Gv21176000.8 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Atauschii_AET2Gv21176000.8 | Rfam | 14.6 | MIR1122 | 7.3e-8 |
| Atauschii_AET2Gv21176000.9 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Atauschii_AET2Gv21176000.9 | Rfam | 14.6 | MIR1122 | 6.8e-8 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
