Atauschii AET1Gv20341000
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_AET1Gv20341000 [ AET1Gv20341000] |
1D | 174763435 | 174766426 | 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_AET1Gv20341000.16 AET1Gv20341000.16 |
High | No | 1658 | OG0024289 | Get ORF Coding potential... Type: noncoding Potential: -0.386 Folding energies... MFEI: -29.548 AMFE: -0.645 GC content %: 45.778 | |
| Atauschii_AET1Gv20341000.18 AET1Gv20341000.18 |
Low | No | 349 | OG0068198 | Get ORF Coding potential... Type: noncoding Potential: -1.304 Folding energies... MFEI: -39.112 AMFE: -0.623 GC content %: 62.751 | |
| Atauschii_AET1Gv20341000.19 AET1Gv20341000.19 |
Low | No | 686 | OG0024289 | Get ORF Coding potential... Type: noncoding Potential: -1.291 Folding energies... MFEI: -32.201 AMFE: -0.617 GC content %: 52.187 | |
| Atauschii_AET1Gv20341000.20 AET1Gv20341000.20 |
Low | No | 383 | OG0068199 | Get ORF Coding potential... Type: noncoding Potential: -1.311 Folding energies... MFEI: -36.789 AMFE: -0.615 GC content %: 59.791 |
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_AET1Gv20341000.18 | RepBase (RepeatMasker) | 2014-01-31 | DNA/MULE-MuDR; Simple_repeat | |
| Atauschii_AET1Gv20341000.19 | RepBase (RepeatMasker) | 2014-01-31 | DNA/MULE-MuDR; Simple_repeat | |
| Atauschii_AET1Gv20341000.20 | RepBase (RepeatMasker) | 2014-01-31 | DNA/MULE-MuDR; Simple_repeat |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
