Atauschii AET5Gv20509600
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_AET5Gv20509600 [ AET5Gv20509600] |
5D | 331812287 | 331817499 | 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_AET5Gv20509600.10 AET5Gv20509600.10 |
Low | Yes | 2761 | OG0002931 | Get ORF Coding potential... Type: noncoding Potential: -1.069 Folding energies... MFEI: -30.822 AMFE: -0.676 GC content %: 45.563 | |
| Atauschii_AET5Gv20509600.12 AET5Gv20509600.12 |
High | No | 1547 | OG0002931 | Get ORF Coding potential... Type: noncoding Potential: -0.988 Folding energies... MFEI: -31.597 AMFE: -0.632 GC content %: 49.968 | |
| Atauschii_AET5Gv20509600.13 AET5Gv20509600.13 |
Low | Yes | 4697 | OG0002931 | Get ORF Coding potential... Type: noncoding Potential: -1.114 Folding energies... MFEI: -33.191 AMFE: -0.727 GC content %: 45.646 | |
| Atauschii_AET5Gv20509600.15 AET5Gv20509600.15 |
High | No | 826 | OG0002931 | Get ORF Coding potential... Type: noncoding Potential: -0.850 Folding energies... MFEI: -30.956 AMFE: -0.580 GC content %: 53.390 | |
| Atauschii_AET5Gv20509600.16 AET5Gv20509600.16 |
High | No | 814 | OG0002931 | Get ORF Coding potential... Type: noncoding Potential: -1.333 Folding energies... MFEI: -30.971 AMFE: -0.607 GC content %: 50.983 | |
| Atauschii_AET5Gv20509600.17 AET5Gv20509600.17 |
High | No | 1100 | OG0002931 | Get ORF Coding potential... Type: noncoding Potential: -1.042 Folding energies... MFEI: -25.582 AMFE: -0.659 GC content %: 38.818 | |
| Atauschii_AET5Gv20509600.18 AET5Gv20509600.18 |
High | No | 704 | OG0002931 | Get ORF Coding potential... Type: noncoding Potential: -1.208 Folding energies... MFEI: -30.128 AMFE: -0.655 GC content %: 46.023 | |
| Atauschii_AET5Gv20509600.2 AET5Gv20509600.2 |
Low | Yes | 1990 | OG0002931 | Get ORF Coding potential... Type: noncoding Potential: -1.028 Folding energies... MFEI: -31.342 AMFE: -0.685 GC content %: 45.729 |
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_AET5Gv20509600.2 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Atauschii_AET5Gv20509600.10 | Rfam | 14.6 | MIR1122 | 6.9e-15 |
| Atauschii_AET5Gv20509600.13 | Rfam | 14.6 | MIR1122 | 1.2e-14 |
| Atauschii_AET5Gv20509600.2 | Rfam | 14.6 | MIR1122 | 5.0e-15 |
| Atauschii_AET5Gv20509600.10 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Atauschii_AET5Gv20509600.13 | RepBase (RepeatMasker) | 2014-01-31 | DNA; DNA/TcMar-Stowaway |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
