Atauschii AET2Gv20005500
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_AET2Gv20005500 [ AET2Gv20005500] |
2D | 1377642 | 1381729 | 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_AET2Gv20005500.2 AET2Gv20005500.2 |
High | No | 740 | OG0002339 | Get ORF Coding potential... Type: noncoding Potential: -0.865 Folding energies... MFEI: -25.351 AMFE: -0.527 GC content %: 48.108 | |
| Atauschii_AET2Gv20005500.3 AET2Gv20005500.3 |
High | No | 668 | OG0002339 | Get ORF Coding potential... Type: noncoding Potential: -0.828 Folding energies... MFEI: -25.314 AMFE: -0.527 GC content %: 48.054 | |
| Atauschii_AET2Gv20005500.4 AET2Gv20005500.4 |
Low | No | 1470 | OG0015946 | Get ORF Coding potential... Type: noncoding Potential: -0.967 Folding energies... MFEI: -25.361 AMFE: -0.608 GC content %: 41.701 | |
| Atauschii_AET2Gv20005500.5 AET2Gv20005500.5 |
Low | No | 1106 | OG0015946 | Get ORF Coding potential... Type: noncoding Potential: -0.927 Folding energies... MFEI: -25.552 AMFE: -0.586 GC content %: 43.580 | |
| Atauschii_AET2Gv20005500.7 AET2Gv20005500.7 |
Low | No | 1426 | OG0015946 | Get ORF Coding potential... Type: noncoding Potential: -0.963 Folding energies... MFEI: -25.470 AMFE: -0.611 GC content %: 41.655 | |
| Atauschii_AET2Gv20005500.8 AET2Gv20005500.8 |
High | No | 213 | OG0069553 | Get ORF Coding potential... Type: noncoding Potential: -1.402 Folding energies... MFEI: -5.023 AMFE: -0.210 GC content %: 23.944 | |
| Atauschii_AET2Gv20005500.9 AET2Gv20005500.9 |
Low | Yes | 1508 | OG0002339 | Get ORF Coding potential... Type: noncoding Potential: -1.100 Folding energies... MFEI: -35.643 AMFE: -0.796 GC content %: 44.761 |
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_AET2Gv20005500.5 | RepBase (RepeatMasker) | 2014-01-31 | DNA/CMC-EnSpm | |
| Atauschii_AET2Gv20005500.7 | RepBase (RepeatMasker) | 2014-01-31 | DNA/CMC-EnSpm | |
| Atauschii_AET2Gv20005500.9 | RepBase (RepeatMasker) | 2014-01-31 | DNA/CMC-EnSpm | |
| Atauschii_AET2Gv20005500.9 | Rfam | 14.6 | mir-359 | 0.0077 |
| Atauschii_AET2Gv20005500.4 | RepBase (RepeatMasker) | 2014-01-31 | DNA/CMC-EnSpm |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
