Atauschii AET2Gv20557500
From GreeNC
Gene information
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_AET2Gv20557500 [ AET2Gv20557500] |
2D | 294229262 | 294237332 | v4 | Aegilops tauschii (Ensembl Plants 51) | Coding? Yes |
Transcript features
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_AET2Gv20557500.1 AET2Gv20557500.1 |
Low | Yes | 4886 | OG0000684 | Get ORF Coding potential... Type: noncoding Potential: -0.987 Folding energies... MFEI: -29.233 AMFE: -0.623 GC content %: 46.950 | |
| Atauschii_AET2Gv20557500.10 AET2Gv20557500.10 |
High | No | 1177 | OG0000684 | Get ORF Coding potential... Type: noncoding Potential: -1.246 Folding energies... MFEI: -25.234 AMFE: -0.583 GC content %: 43.246 | |
| Atauschii_AET2Gv20557500.11 AET2Gv20557500.11 |
Low | Yes | 4040 | OG0000684 | Get ORF Coding potential... Type: noncoding Potential: -0.980 Folding energies... MFEI: -30.866 AMFE: -0.618 GC content %: 49.926 | |
| Atauschii_AET2Gv20557500.15 AET2Gv20557500.15 |
Low | Yes | 3054 | OG0000684 | Get ORF Coding potential... Type: noncoding Potential: -0.961 Folding energies... MFEI: -32.934 AMFE: -0.620 GC content %: 53.078 | |
| Atauschii_AET2Gv20557500.17 AET2Gv20557500.17 |
Low | Yes | 2572 | OG0000684 | Get ORF Coding potential... Type: noncoding Potential: -1.202 Folding energies... MFEI: -33.052 AMFE: -0.618 GC content %: 53.460 | |
| Atauschii_AET2Gv20557500.2 AET2Gv20557500.2 |
Low | Yes | 4870 | OG0000684 | Get ORF Coding potential... Type: noncoding Potential: -0.987 Folding energies... MFEI: -29.103 AMFE: -0.624 GC content %: 46.674 | |
| Atauschii_AET2Gv20557500.20 AET2Gv20557500.20 |
Low | Yes | 2577 | OG0000684 | Get ORF Coding potential... Type: noncoding Potential: -0.947 Folding energies... MFEI: -32.615 AMFE: -0.618 GC content %: 52.813 | |
| Atauschii_AET2Gv20557500.21 AET2Gv20557500.21 |
Low | Yes | 2134 | OG0000684 | Get ORF Coding potential... Type: noncoding Potential: -0.929 Folding energies... MFEI: -31.837 AMFE: -0.636 GC content %: 50.047 | |
| Atauschii_AET2Gv20557500.22 AET2Gv20557500.22 |
Low | Yes | 1830 | OG0000684 | Get ORF Coding potential... Type: noncoding Potential: -0.913 Folding energies... MFEI: -29.836 AMFE: -0.655 GC content %: 45.574 | |
| Atauschii_AET2Gv20557500.24 AET2Gv20557500.24 |
Low | Yes | 2268 | OG0000684 | Get ORF Coding potential... Type: noncoding Potential: -0.868 Folding energies... MFEI: -30.732 AMFE: -0.600 GC content %: 51.235 | |
| Atauschii_AET2Gv20557500.25 AET2Gv20557500.25 |
Low | Yes | 1594 | OG0000684 | Get ORF Coding potential... Type: noncoding Potential: -1.044 Folding energies... MFEI: -28.708 AMFE: -0.670 GC content %: 42.848 | |
| Atauschii_AET2Gv20557500.26 AET2Gv20557500.26 |
Low | Yes | 1546 | OG0000684 | Get ORF Coding potential... Type: noncoding Potential: -1.074 Folding energies... MFEI: -31.591 AMFE: -0.634 GC content %: 49.806 | |
| Atauschii_AET2Gv20557500.27 AET2Gv20557500.27 |
High | No | 248 | OG0070483 | Get ORF Coding potential... Type: noncoding Potential: -1.375 Folding energies... MFEI: -19.879 AMFE: -0.503 GC content %: 39.516 | |
| Atauschii_AET2Gv20557500.28 AET2Gv20557500.28 |
Low | Yes | 1427 | OG0000684 | Get ORF Coding potential... Type: noncoding Potential: -1.005 Folding energies... MFEI: -29.425 AMFE: -0.674 GC content %: 43.658 | |
| Atauschii_AET2Gv20557500.29 AET2Gv20557500.29 |
Low | Yes | 1773 | OG0000684 | Get ORF Coding potential... Type: noncoding Potential: -1.088 Folding energies... MFEI: -30.835 AMFE: -0.632 GC content %: 48.787 | |
| Atauschii_AET2Gv20557500.30 AET2Gv20557500.30 |
High | No | 811 | OG0000684 | Get ORF Coding potential... Type: noncoding Potential: -1.016 Folding energies... MFEI: -32.084 AMFE: -0.474 GC content %: 67.694 | |
| Atauschii_AET2Gv20557500.5 AET2Gv20557500.5 |
High | No | 1247 | OG0000684 | Get ORF Coding potential... Type: noncoding Potential: -1.249 Folding energies... MFEI: -25.966 AMFE: -0.603 GC content %: 43.063 | |
| Atauschii_AET2Gv20557500.8 AET2Gv20557500.8 |
Low | Yes | 4338 | OG0000684 | Get ORF Coding potential... Type: noncoding Potential: -0.985 Folding energies... MFEI: -30.420 AMFE: -0.625 GC content %: 48.640 |
Matches to external databases
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_AET2Gv20557500.17 | Rfam | 14.6 | MIR1122 | 2.6e-16 |
| Atauschii_AET2Gv20557500.20 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Atauschii_AET2Gv20557500.1 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Atauschii_AET2Gv20557500.25 | Rfam | 14.6 | MIR1122 | 1.6e-16 |
| Atauschii_AET2Gv20557500.28 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Atauschii_AET2Gv20557500.2 | Rfam | 14.6 | MIR1122 | 4.9e-16 |
| Atauschii_AET2Gv20557500.21 | RepBase (RepeatMasker) | 2014-01-31 | DNA/CMC-EnSpm; DNA/TcMar-Stowaway | |
| Atauschii_AET2Gv20557500.11 | RepBase (RepeatMasker) | 2014-01-31 | DNA/CMC-EnSpm; DNA/TcMar-Stowaway | |
| Atauschii_AET2Gv20557500.26 | Rfam | 14.6 | MIR1122 | 1.6e-16 |
| Atauschii_AET2Gv20557500.29 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway |
... further results
Gene models
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
