Atauschii AET3Gv20539100
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_AET3Gv20539100 [ AET3Gv20539100] |
3D | 308746706 | 308751227 | 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_AET3Gv20539100.11 AET3Gv20539100.11 |
High | No | 920 | OG0001558 | Get ORF Coding potential... Type: noncoding Potential: -1.257 Folding energies... MFEI: -35.272 AMFE: -0.713 GC content %: 49.457 | |
| Atauschii_AET3Gv20539100.12 AET3Gv20539100.12 |
High | No | 1422 | OG0001558 | Get ORF Coding potential... Type: noncoding Potential: -1.181 Folding energies... MFEI: -35.225 AMFE: -0.681 GC content %: 51.758 | |
| Atauschii_AET3Gv20539100.13 AET3Gv20539100.13 |
Low | No | 1149 | OG0001558 | Get ORF Coding potential... Type: noncoding Potential: -1.157 Folding energies... MFEI: -33.786 AMFE: -0.652 GC content %: 51.784 | |
| Atauschii_AET3Gv20539100.14 AET3Gv20539100.14 |
High | No | 1048 | OG0001558 | Get ORF Coding potential... Type: noncoding Potential: -1.146 Folding energies... MFEI: -29.456 AMFE: -0.636 GC content %: 46.279 | |
| Atauschii_AET3Gv20539100.15 AET3Gv20539100.15 |
High | No | 1033 | OG0001558 | Get ORF Coding potential... Type: noncoding Potential: -1.047 Folding energies... MFEI: -29.332 AMFE: -0.631 GC content %: 46.467 | |
| Atauschii_AET3Gv20539100.16 AET3Gv20539100.16 |
High | No | 850 | OG0001558 | Get ORF Coding potential... Type: noncoding Potential: -1.120 Folding energies... MFEI: -31.153 AMFE: -0.617 GC content %: 50.471 | |
| Atauschii_AET3Gv20539100.17 AET3Gv20539100.17 |
High | No | 422 | OG0072814 | Get ORF Coding potential... Type: noncoding Potential: -1.186 Folding energies... MFEI: -33.957 AMFE: -0.501 GC content %: 67.773 | |
| Atauschii_AET3Gv20539100.4 AET3Gv20539100.4 |
High | No | 2321 | OG0001558 | Get ORF Coding potential... Type: noncoding Potential: -1.206 Folding energies... MFEI: -34.089 AMFE: -0.677 GC content %: 50.323 | |
| Atauschii_AET3Gv20539100.6 AET3Gv20539100.6 |
Low | No | 2607 | OG0001558 | Get ORF Coding potential... Type: noncoding Potential: -1.120 Folding energies... MFEI: -33.268 AMFE: -0.761 GC content %: 43.728 | |
| Atauschii_AET3Gv20539100.7 AET3Gv20539100.7 |
High | No | 2189 | OG0001558 | Get ORF Coding potential... Type: noncoding Potential: -0.959 Folding energies... MFEI: -34.386 AMFE: -0.674 GC content %: 51.028 | |
| Atauschii_AET3Gv20539100.8 AET3Gv20539100.8 |
Low | No | 2674 | OG0001558 | Get ORF Coding potential... Type: noncoding Potential: -1.121 Folding energies... MFEI: -34.985 AMFE: -0.729 GC content %: 48.018 | |
| Atauschii_AET3Gv20539100.9 AET3Gv20539100.9 |
Low | No | 2720 | OG0001558 | Get ORF Coding potential... Type: noncoding Potential: -1.218 Folding energies... MFEI: -35.246 AMFE: -0.735 GC content %: 47.941 |
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_AET3Gv20539100.13 | RepBase (RepeatMasker) | 2014-01-31 | DNA/CMC-EnSpm | |
| Atauschii_AET3Gv20539100.6 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Atauschii_AET3Gv20539100.8 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Atauschii_AET3Gv20539100.9 | 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).
