Atauschii AET5Gv20658600
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_AET5Gv20658600 [ AET5Gv20658600] |
5D | 395486711 | 395703862 | 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_AET5Gv20658600.10 AET5Gv20658600.10 |
Low | No | 2329 | OG0016513 | Get ORF Coding potential... Type: noncoding Potential: -0.866 Folding energies... MFEI: -28.330 AMFE: -0.685 GC content %: 41.348 | |
| Atauschii_AET5Gv20658600.12 AET5Gv20658600.12 |
High | No | 516 | OG0025635 | Get ORF Coding potential... Type: noncoding Potential: -0.622 Folding energies... MFEI: -40.233 AMFE: -0.618 GC content %: 65.116 | |
| Atauschii_AET5Gv20658600.13 AET5Gv20658600.13 |
Low | Yes | 880 | OG0025636 | Get ORF Coding potential... Type: noncoding Potential: -0.750 Folding energies... MFEI: -27.966 AMFE: -0.669 GC content %: 41.818 | |
| Atauschii_AET5Gv20658600.21 AET5Gv20658600.21 |
High | No | 800 | OG0025636 | Get ORF Coding potential... Type: noncoding Potential: -0.288 Folding energies... MFEI: -26.150 AMFE: -0.561 GC content %: 46.625 | |
| Atauschii_AET5Gv20658600.29 AET5Gv20658600.29 |
High | No | 754 | OG0025635 | Get ORF Coding potential... Type: noncoding Potential: -0.648 Folding energies... MFEI: -37.109 AMFE: -0.634 GC content %: 58.488 | |
| Atauschii_AET5Gv20658600.4 AET5Gv20658600.4 |
Low | No | 2693 | OG0016513 | Get ORF Coding potential... Type: noncoding Potential: -0.377 Folding energies... MFEI: -27.761 AMFE: -0.661 GC content %: 41.998 |
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_AET5Gv20658600.13 | Rfam | 14.6 | MIR1122 | 2.3e-9 |
| Atauschii_AET5Gv20658600.10 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway; LTR/Gypsy | |
| Atauschii_AET5Gv20658600.13 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Atauschii_AET5Gv20658600.4 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway; LTR/Gypsy |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
