Atauschii AET1Gv20364800
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_AET1Gv20364800 [ AET1Gv20364800] |
1D | 199379227 | 199560052 | 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_AET1Gv20364800.3 AET1Gv20364800.3 |
Low | Yes | 704 | OG0009718 | Get ORF Coding potential... Type: noncoding Potential: -0.135 Folding energies... MFEI: -30.028 AMFE: -0.780 GC content %: 38.494 | |
| Atauschii_AET1Gv20364800.30 AET1Gv20364800.30 |
Low | No | 368 | OG0068236 | Get ORF Coding potential... Type: noncoding Potential: -0.500 Folding energies... MFEI: -27.337 AMFE: -0.641 GC content %: 42.663 | |
| Atauschii_AET1Gv20364800.32 AET1Gv20364800.32 |
Low | Yes | 772 | OG0068237 | Get ORF Coding potential... Type: noncoding Potential: -0.453 Folding energies... MFEI: -29.845 AMFE: -0.781 GC content %: 38.212 | |
| Atauschii_AET1Gv20364800.5 AET1Gv20364800.5 |
Low | Yes | 795 | OG0068238 | Get ORF Coding potential... Type: noncoding Potential: -0.094 Folding energies... MFEI: -29.019 AMFE: -0.754 GC content %: 38.491 | |
| Atauschii_AET1Gv20364800.6 AET1Gv20364800.6 |
Low | Yes | 518 | OG0009718 | Get ORF Coding potential... Type: noncoding Potential: -0.831 Folding energies... MFEI: -33.571 AMFE: -0.901 GC content %: 37.259 |
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_AET1Gv20364800.6 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Atauschii_AET1Gv20364800.5 | Rfam | 14.6 | MIR1122 | 4.5e-16 |
| Atauschii_AET1Gv20364800.30 | SwissProt | 2021-04-01 | Q9NXN4 | 1.14e-7 |
| Atauschii_AET1Gv20364800.6 | Rfam | 14.6 | MIR1122 | 2.9e-16 |
| Atauschii_AET1Gv20364800.32 | SwissProt | 2021-04-01 | Q54TH9 | 3.08e-12 |
| Atauschii_AET1Gv20364800.3 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Atauschii_AET1Gv20364800.5 | SwissProt | 2021-04-01 | Q54TH9 | 9.96e-18 |
| Atauschii_AET1Gv20364800.32 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Atauschii_AET1Gv20364800.3 | Rfam | 14.6 | MIR1122 | 4.0e-16 |
| Atauschii_AET1Gv20364800.5 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway |
... further results
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
