Atauschii AET2Gv20338900
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_AET2Gv20338900 [ AET2Gv20338900] |
2D | 115584401 | 115593318 | 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_AET2Gv20338900.1 AET2Gv20338900.1 |
High | No | 994 | OG0001286 | Get ORF Coding potential... Type: noncoding Potential: -1.139 Folding energies... MFEI: -26.781 AMFE: -0.671 GC content %: 39.940 | |
| Atauschii_AET2Gv20338900.10 AET2Gv20338900.10 |
High | No | 608 | OG0001286 | Get ORF Coding potential... Type: noncoding Potential: -1.018 Folding energies... MFEI: -32.253 AMFE: -0.654 GC content %: 49.342 | |
| Atauschii_AET2Gv20338900.11 AET2Gv20338900.11 |
Low | Yes | 2092 | OG0001286 | Get ORF Coding potential... Type: noncoding Potential: -1.191 Folding energies... MFEI: -29.207 AMFE: -0.719 GC content %: 40.631 | |
| Atauschii_AET2Gv20338900.14 AET2Gv20338900.14 |
Low | Yes | 2204 | OG0001286 | Get ORF Coding potential... Type: noncoding Potential: -0.994 Folding energies... MFEI: -31.329 AMFE: -0.697 GC content %: 44.918 | |
| Atauschii_AET2Gv20338900.15 AET2Gv20338900.15 |
Low | Yes | 2084 | OG0001286 | Get ORF Coding potential... Type: noncoding Potential: -1.187 Folding energies... MFEI: -31.915 AMFE: -0.708 GC content %: 45.106 | |
| Atauschii_AET2Gv20338900.16 AET2Gv20338900.16 |
High | No | 2468 | OG0001286 | Get ORF Coding potential... Type: noncoding Potential: -1.010 Folding energies... MFEI: -28.991 AMFE: -0.640 GC content %: 45.300 | |
| Atauschii_AET2Gv20338900.17 AET2Gv20338900.17 |
High | No | 1087 | OG0001286 | Get ORF Coding potential... Type: noncoding Potential: -1.115 Folding energies... MFEI: -24.489 AMFE: -0.631 GC content %: 38.822 | |
| Atauschii_AET2Gv20338900.18 AET2Gv20338900.18 |
High | No | 1249 | OG0001286 | Get ORF Coding potential... Type: noncoding Potential: -1.013 Folding energies... MFEI: -30.729 AMFE: -0.609 GC content %: 50.440 | |
| Atauschii_AET2Gv20338900.2 AET2Gv20338900.2 |
Low | Yes | 2853 | OG0001286 | Get ORF Coding potential... Type: noncoding Potential: -1.214 Folding energies... MFEI: -31.921 AMFE: -0.729 GC content %: 43.778 | |
| Atauschii_AET2Gv20338900.5 AET2Gv20338900.5 |
High | No | 1715 | OG0001286 | Get ORF Coding potential... Type: noncoding Potential: -1.254 Folding energies... MFEI: -28.198 AMFE: -0.652 GC content %: 43.265 | |
| Atauschii_AET2Gv20338900.9 AET2Gv20338900.9 |
High | No | 2430 | OG0001286 | Get ORF Coding potential... Type: noncoding Potential: -1.008 Folding energies... MFEI: -31.514 AMFE: -0.652 GC content %: 48.354 |
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_AET2Gv20338900.14 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Atauschii_AET2Gv20338900.11 | Rfam | 14.6 | MIR1122 | 2.4e-14 |
| Atauschii_AET2Gv20338900.15 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Atauschii_AET2Gv20338900.14 | Rfam | 14.6 | MIR1122 | 2.5e-14 |
| Atauschii_AET2Gv20338900.2 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Atauschii_AET2Gv20338900.15 | Rfam | 14.6 | MIR1122 | 2.3e-14 |
| Atauschii_AET2Gv20338900.2 | Rfam | 14.6 | MIR1122 | 1.5e-18 |
| Atauschii_AET2Gv20338900.11 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
