Atauschii AET4Gv20209200
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_AET4Gv20209200 [ AET4Gv20209200] |
4D | 76951965 | 77070509 | v4 | Aegilops tauschii (Ensembl Plants 51) | Coding? No |
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_AET4Gv20209200.1 AET4Gv20209200.1 |
High | No | 541 | OG0002375 | Get ORF Coding potential... Type: noncoding Potential: -1.160 Folding energies... MFEI: -23.087 AMFE: -0.595 GC content %: 38.817 | |
| Atauschii_AET4Gv20209200.10 AET4Gv20209200.10 |
Low | No | 1073 | OG0002375 | Get ORF Coding potential... Type: noncoding Potential: -1.001 Folding energies... MFEI: -30.149 AMFE: -0.600 GC content %: 50.233 | |
| Atauschii_AET4Gv20209200.2 AET4Gv20209200.2 |
High | No | 970 | OG0002375 | Get ORF Coding potential... Type: noncoding Potential: -0.858 Folding energies... MFEI: -29.505 AMFE: -0.588 GC content %: 50.206 | |
| Atauschii_AET4Gv20209200.3 AET4Gv20209200.3 |
Low | Yes | 2291 | OG0002375 | Get ORF Coding potential... Type: noncoding Potential: -1.073 Folding energies... MFEI: -28.058 AMFE: -0.662 GC content %: 42.383 | |
| Atauschii_AET4Gv20209200.4 AET4Gv20209200.4 |
Low | Yes | 1480 | OG0002375 | Get ORF Coding potential... Type: noncoding Potential: -1.035 Folding energies... MFEI: -29.155 AMFE: -0.635 GC content %: 45.878 | |
| Atauschii_AET4Gv20209200.5 AET4Gv20209200.5 |
High | No | 1056 | OG0002375 | Get ORF Coding potential... Type: noncoding Potential: -1.006 Folding energies... MFEI: -28.400 AMFE: -0.567 GC content %: 50.095 | |
| Atauschii_AET4Gv20209200.6 AET4Gv20209200.6 |
Low | No | 1203 | OG0002375 | Get ORF Coding potential... Type: noncoding Potential: -1.013 Folding energies... MFEI: -27.947 AMFE: -0.572 GC content %: 48.878 | |
| Atauschii_AET4Gv20209200.7 AET4Gv20209200.7 |
Low | No | 1961 | OG0002375 | Get ORF Coding potential... Type: noncoding Potential: -1.061 Folding energies... MFEI: -27.282 AMFE: -0.631 GC content %: 43.243 | |
| Atauschii_AET4Gv20209200.8 AET4Gv20209200.8 |
High | No | 1802 | OG0002375 | Get ORF Coding potential... Type: noncoding Potential: -1.054 Folding energies... MFEI: -27.525 AMFE: -0.633 GC content %: 43.452 | |
| Atauschii_AET4Gv20209200.9 AET4Gv20209200.9 |
High | No | 311 | OG0074537 | Get ORF Coding potential... Type: noncoding Potential: -1.308 Folding energies... MFEI: -20.836 AMFE: -0.568 GC content %: 36.656 |
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_AET4Gv20209200.10 | RepBase (RepeatMasker) | 2014-01-31 | DNA/CMC-EnSpm | |
| Atauschii_AET4Gv20209200.3 | RepBase (RepeatMasker) | 2014-01-31 | DNA/CMC-EnSpm; DNA/TcMar-Stowaway | |
| Atauschii_AET4Gv20209200.4 | RepBase (RepeatMasker) | 2014-01-31 | DNA/CMC-EnSpm; DNA/TcMar-Stowaway | |
| Atauschii_AET4Gv20209200.6 | RepBase (RepeatMasker) | 2014-01-31 | DNA/CMC-EnSpm | |
| Atauschii_AET4Gv20209200.3 | Rfam | 14.6 | MIR1122 | 9.1e-16 |
| Atauschii_AET4Gv20209200.7 | RepBase (RepeatMasker) | 2014-01-31 | DNA/CMC-EnSpm | |
| Atauschii_AET4Gv20209200.4 | Rfam | 14.6 | MIR1122 | 5.9e-16 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
