Atauschii AET1Gv20989300
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_AET1Gv20989300 [ AET1Gv20989300] |
1D | 486318136 | 486323574 | 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_AET1Gv20989300.1 AET1Gv20989300.1 |
Low | No | 1020 | OG0069410 | Get ORF Coding potential... Type: noncoding Potential: -0.847 Folding energies... MFEI: -26.569 AMFE: -0.647 GC content %: 41.078 | |
| Atauschii_AET1Gv20989300.10 AET1Gv20989300.10 |
Low | No | 1074 | OG0006809 | Get ORF Coding potential... Type: noncoding Potential: -0.913 Folding energies... MFEI: -32.924 AMFE: -0.650 GC content %: 50.652 | |
| Atauschii_AET1Gv20989300.11 AET1Gv20989300.11 |
High | No | 543 | OG0006809 | Get ORF Coding potential... Type: noncoding Potential: -0.729 Folding energies... MFEI: -37.808 AMFE: -0.660 GC content %: 57.274 | |
| Atauschii_AET1Gv20989300.12 AET1Gv20989300.12 |
High | No | 766 | OG0006810 | Get ORF Coding potential... Type: noncoding Potential: -1.044 Folding energies... MFEI: -38.773 AMFE: -0.663 GC content %: 58.486 | |
| Atauschii_AET1Gv20989300.13 AET1Gv20989300.13 |
High | No | 296 | OG0006809 | Get ORF Coding potential... Type: noncoding Potential: -1.201 Folding energies... MFEI: -31.622 AMFE: -0.564 GC content %: 56.081 | |
| Atauschii_AET1Gv20989300.2 AET1Gv20989300.2 |
High | No | 849 | OG0006811 | Get ORF Coding potential... Type: noncoding Potential: -1.065 Folding energies... MFEI: -35.548 AMFE: -0.650 GC content %: 54.653 | |
| Atauschii_AET1Gv20989300.3 AET1Gv20989300.3 |
Low | Yes | 1179 | OG0006810 | Get ORF Coding potential... Type: noncoding Potential: -1.108 Folding energies... MFEI: -30.322 AMFE: -0.702 GC content %: 43.172 | |
| Atauschii_AET1Gv20989300.4 AET1Gv20989300.4 |
Low | Yes | 1493 | OG0006810 | Get ORF Coding potential... Type: noncoding Potential: -1.148 Folding energies... MFEI: -33.510 AMFE: -0.704 GC content %: 47.622 | |
| Atauschii_AET1Gv20989300.5 AET1Gv20989300.5 |
Low | Yes | 1567 | OG0006810 | Get ORF Coding potential... Type: noncoding Potential: -1.156 Folding energies... MFEI: -33.963 AMFE: -0.700 GC content %: 48.500 | |
| Atauschii_AET1Gv20989300.6 AET1Gv20989300.6 |
Low | Yes | 1469 | OG0006810 | Get ORF Coding potential... Type: noncoding Potential: -1.146 Folding energies... MFEI: -33.295 AMFE: -0.704 GC content %: 47.311 | |
| Atauschii_AET1Gv20989300.7 AET1Gv20989300.7 |
High | No | 877 | OG0006809 | Get ORF Coding potential... Type: noncoding Potential: -0.864 Folding energies... MFEI: -37.469 AMFE: -0.699 GC content %: 53.592 | |
| Atauschii_AET1Gv20989300.8 AET1Gv20989300.8 |
High | No | 867 | OG0006811 | Get ORF Coding potential... Type: noncoding Potential: -1.069 Folding energies... MFEI: -35.836 AMFE: -0.673 GC content %: 53.287 | |
| Atauschii_AET1Gv20989300.9 AET1Gv20989300.9 |
Low | No | 1098 | OG0006809 | Get ORF Coding potential... Type: noncoding Potential: -0.918 Folding energies... MFEI: -33.488 AMFE: -0.657 GC content %: 51.002 |
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_AET1Gv20989300.3 | Rfam | 14.6 | MIR1122 | 2.9e-5 |
| Atauschii_AET1Gv20989300.3 | RepBase (RepeatMasker) | 2014-01-31 | DNA/Maverick; DNA/TcMar-Stowaway | |
| Atauschii_AET1Gv20989300.4 | Rfam | 14.6 | MIR1122 | 3.7e-5 |
| Atauschii_AET1Gv20989300.4 | RepBase (RepeatMasker) | 2014-01-31 | DNA/Maverick; DNA/TcMar-Stowaway | |
| Atauschii_AET1Gv20989300.5 | Rfam | 14.6 | MIR1122 | 3.9e-5 |
| Atauschii_AET1Gv20989300.5 | RepBase (RepeatMasker) | 2014-01-31 | DNA/Maverick; DNA/TcMar-Stowaway | |
| Atauschii_AET1Gv20989300.6 | Rfam | 14.6 | MIR1122 | 3.7e-5 |
| Atauschii_AET1Gv20989300.6 | RepBase (RepeatMasker) | 2014-01-31 | DNA/Maverick; DNA/TcMar-Stowaway | |
| Atauschii_AET1Gv20989300.1 | RepBase (RepeatMasker) | 2014-01-31 | LINE/L1; LTR/Gypsy | |
| Atauschii_AET1Gv20989300.9 | RepBase (RepeatMasker) | 2014-01-31 | DNA/Maverick |
... further results
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
