Atauschii AET5Gv20056000
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_AET5Gv20056000 [ AET5Gv20056000] |
5D | 22486225 | 22497971 | 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_AET5Gv20056000.1 AET5Gv20056000.1 |
Low | Yes | 5732 | OG0001165 | Get ORF Coding potential... Type: noncoding Potential: -0.986 Folding energies... MFEI: -28.545 AMFE: -0.679 GC content %: 42.062 | |
| Atauschii_AET5Gv20056000.10 AET5Gv20056000.10 |
Low | No | 1147 | OG0001165 | Get ORF Coding potential... Type: noncoding Potential: -1.252 Folding energies... MFEI: -26.364 AMFE: -0.712 GC content %: 37.053 | |
| Atauschii_AET5Gv20056000.11 AET5Gv20056000.11 |
Low | No | 3353 | OG0001165 | Get ORF Coding potential... Type: noncoding Potential: -1.161 Folding energies... MFEI: -29.374 AMFE: -0.655 GC content %: 44.826 | |
| Atauschii_AET5Gv20056000.12 AET5Gv20056000.12 |
High | No | 3328 | OG0001165 | Get ORF Coding potential... Type: noncoding Potential: -1.160 Folding energies... MFEI: -29.474 AMFE: -0.652 GC content %: 45.192 | |
| Atauschii_AET5Gv20056000.13 AET5Gv20056000.13 |
Low | No | 3421 | OG0001165 | Get ORF Coding potential... Type: noncoding Potential: -1.162 Folding energies... MFEI: -29.234 AMFE: -0.655 GC content %: 44.607 | |
| Atauschii_AET5Gv20056000.2 AET5Gv20056000.2 |
Low | Yes | 5608 | OG0001165 | Get ORF Coding potential... Type: noncoding Potential: -1.269 Folding energies... MFEI: -27.819 AMFE: -0.700 GC content %: 39.747 | |
| Atauschii_AET5Gv20056000.3 AET5Gv20056000.3 |
Low | Yes | 4443 | OG0001165 | Get ORF Coding potential... Type: noncoding Potential: -1.262 Folding energies... MFEI: -28.674 AMFE: -0.701 GC content %: 40.918 | |
| Atauschii_AET5Gv20056000.4 AET5Gv20056000.4 |
Low | Yes | 4080 | OG0001165 | Get ORF Coding potential... Type: noncoding Potential: -1.262 Folding energies... MFEI: -29.468 AMFE: -0.709 GC content %: 41.544 | |
| Atauschii_AET5Gv20056000.5 AET5Gv20056000.5 |
Low | Yes | 966 | OG0001165 | Get ORF Coding potential... Type: noncoding Potential: -1.240 Folding energies... MFEI: -30.807 AMFE: -0.794 GC content %: 38.820 | |
| Atauschii_AET5Gv20056000.6 AET5Gv20056000.6 |
Low | No | 3305 | OG0001165 | Get ORF Coding potential... Type: noncoding Potential: -1.261 Folding energies... MFEI: -29.135 AMFE: -0.680 GC content %: 42.844 | |
| Atauschii_AET5Gv20056000.7 AET5Gv20056000.7 |
High | No | 3222 | OG0001165 | Get ORF Coding potential... Type: noncoding Potential: -1.159 Folding energies... MFEI: -29.690 AMFE: -0.656 GC content %: 45.251 | |
| Atauschii_AET5Gv20056000.8 AET5Gv20056000.8 |
Low | No | 2100 | OG0001165 | Get ORF Coding potential... Type: noncoding Potential: -1.236 Folding energies... MFEI: -27.152 AMFE: -0.707 GC content %: 38.429 | |
| Atauschii_AET5Gv20056000.9 AET5Gv20056000.9 |
High | No | 3133 | OG0001165 | Get ORF Coding potential... Type: noncoding Potential: -1.258 Folding energies... MFEI: -29.094 AMFE: -0.671 GC content %: 43.345 |
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_AET5Gv20056000.10 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway; LTR/ERV1 | |
| Atauschii_AET5Gv20056000.2 | Rfam | 14.6 | MIR1122 | 1.1e-8 |
| Atauschii_AET5Gv20056000.5 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Atauschii_AET5Gv20056000.11 | RepBase (RepeatMasker) | 2014-01-31 | LTR/ERV1 | |
| Atauschii_AET5Gv20056000.3 | Rfam | 14.6 | MIR1122 | 8.3e-9 |
| Atauschii_AET5Gv20056000.6 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Atauschii_AET5Gv20056000.13 | RepBase (RepeatMasker) | 2014-01-31 | LTR/ERV1 | |
| Atauschii_AET5Gv20056000.4 | Rfam | 14.6 | MIR1122 | 7.7e-9 |
| Atauschii_AET5Gv20056000.8 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway; LTR/ERV1 | |
| Atauschii_AET5Gv20056000.2 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway |
... further results
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
