Atauschii AET2Gv20543400
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_AET2Gv20543400 [ AET2Gv20543400] |
2D | 280385349 | 280391329 | 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_AET2Gv20543400.24 AET2Gv20543400.24 |
Low | No | 3718 | OG0001287 | Get ORF Coding potential... Type: noncoding Potential: -0.217 Folding energies... MFEI: -28.101 AMFE: -0.636 GC content %: 44.217 | |
| Atauschii_AET2Gv20543400.39 AET2Gv20543400.39 |
Low | No | 3303 | OG0001287 | Get ORF Coding potential... Type: noncoding Potential: -1.088 Folding energies... MFEI: -27.362 AMFE: -0.690 GC content %: 39.631 | |
| Atauschii_AET2Gv20543400.43 AET2Gv20543400.43 |
Low | No | 1472 | OG0001287 | Get ORF Coding potential... Type: noncoding Potential: -1.154 Folding energies... MFEI: -26.895 AMFE: -0.665 GC content %: 40.421 | |
| Atauschii_AET2Gv20543400.45 AET2Gv20543400.45 |
Low | No | 1305 | OG0001287 | Get ORF Coding potential... Type: noncoding Potential: -0.712 Folding energies... MFEI: -28.552 AMFE: -0.676 GC content %: 42.222 | |
| Atauschii_AET2Gv20543400.46 AET2Gv20543400.46 |
Low | Yes | 1923 | OG0001287 | Get ORF Coding potential... Type: noncoding Potential: -0.779 Folding energies... MFEI: -29.350 AMFE: -0.738 GC content %: 39.782 | |
| Atauschii_AET2Gv20543400.7 AET2Gv20543400.7 |
High | No | 950 | OG0001287 | Get ORF Coding potential... Type: noncoding Potential: -1.113 Folding energies... MFEI: -30.442 AMFE: -0.550 GC content %: 55.368 |
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_AET2Gv20543400.46 | RepBase (RepeatMasker) | 2014-01-31 | DNA; DNA/TcMar-Stowaway | |
| Atauschii_AET2Gv20543400.39 | SwissProt | 2021-04-01 | Q9SIZ4 | 4.51e-9 |
| Atauschii_AET2Gv20543400.43 | SwissProt | 2021-04-01 | Q9SIZ4 | 1.63e-4 |
| Atauschii_AET2Gv20543400.45 | SwissProt | 2021-04-01 | Q9SIZ4 | 1.55e-9 |
| Atauschii_AET2Gv20543400.46 | SwissProt | 2021-04-01 | Q9SIZ4 | 2.4e-4 |
| Atauschii_AET2Gv20543400.46 | Rfam | 14.6 | MIR1122 | 1.3e-10 |
| Atauschii_AET2Gv20543400.24 | SwissProt | 2021-04-01 | F4J5S1 | 4.05e-24 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
