Atauschii AET3Gv20004400
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_AET3Gv20004400 [ AET3Gv20004400] |
3D | 826161 | 834981 | 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_AET3Gv20004400.1 AET3Gv20004400.1 |
High | No | 239 | OG0071848 | Get ORF Coding potential... Type: noncoding Potential: -0.671 Folding energies... MFEI: -26.736 AMFE: -0.378 GC content %: 70.711 | |
| Atauschii_AET3Gv20004400.27 AET3Gv20004400.27 |
High | No | 250 | OG0071849 | Get ORF Coding potential... Type: noncoding Potential: -0.950 Folding energies... MFEI: -22.200 AMFE: -0.505 GC content %: 44.000 | |
| Atauschii_AET3Gv20004400.35 AET3Gv20004400.35 |
Low | No | 603 | OG0009869 | Get ORF Coding potential... Type: noncoding Potential: -0.652 Folding energies... MFEI: -25.904 AMFE: -0.568 GC content %: 45.605 | |
| Atauschii_AET3Gv20004400.36 AET3Gv20004400.36 |
Low | No | 1180 | OG0009869 | Get ORF Coding potential... Type: noncoding Potential: -1.149 Folding energies... MFEI: -26.364 AMFE: -0.599 GC content %: 43.983 | |
| Atauschii_AET3Gv20004400.37 AET3Gv20004400.37 |
Low | No | 454 | OG0009869 | Get ORF Coding potential... Type: noncoding Potential: -0.889 Folding energies... MFEI: -24.185 AMFE: -0.563 GC content %: 42.952 | |
| Atauschii_AET3Gv20004400.38 AET3Gv20004400.38 |
Low | No | 715 | OG0009869 | Get ORF Coding potential... Type: noncoding Potential: -0.808 Folding energies... MFEI: -24.490 AMFE: -0.545 GC content %: 44.895 |
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_AET3Gv20004400.37 | RepBase (RepeatMasker) | 2014-01-31 | DNA/CMC-EnSpm | |
| Atauschii_AET3Gv20004400.38 | RepBase (RepeatMasker) | 2014-01-31 | DNA/CMC-EnSpm | |
| Atauschii_AET3Gv20004400.35 | RepBase (RepeatMasker) | 2014-01-31 | DNA/CMC-EnSpm | |
| Atauschii_AET3Gv20004400.36 | 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).
