Atauschii AET1Gv20039000
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_AET1Gv20039000 [ AET1Gv20039000] |
1D | 8439804 | 8447782 | 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_AET1Gv20039000.1 AET1Gv20039000.1 |
High | No | 1220 | OG0003647 | Get ORF Coding potential... Type: noncoding Potential: -0.884 Folding energies... MFEI: -27.811 AMFE: -0.607 GC content %: 45.820 | |
| Atauschii_AET1Gv20039000.2 AET1Gv20039000.2 |
Low | Yes | 1991 | OG0003647 | Get ORF Coding potential... Type: noncoding Potential: -0.262 Folding energies... MFEI: -32.501 AMFE: -0.738 GC content %: 44.048 | |
| Atauschii_AET1Gv20039000.3 AET1Gv20039000.3 |
Low | Yes | 2282 | OG0003647 | Get ORF Coding potential... Type: noncoding Potential: -0.296 Folding energies... MFEI: -31.192 AMFE: -0.756 GC content %: 41.236 | |
| Atauschii_AET1Gv20039000.4 AET1Gv20039000.4 |
Low | Yes | 2752 | OG0003647 | Get ORF Coding potential... Type: noncoding Potential: -1.001 Folding energies... MFEI: -30.458 AMFE: -0.726 GC content %: 41.969 | |
| Atauschii_AET1Gv20039000.5 AET1Gv20039000.5 |
Low | No | 898 | OG0003647 | Get ORF Coding potential... Type: noncoding Potential: -0.403 Folding energies... MFEI: -25.958 AMFE: -0.604 GC content %: 42.984 | |
| Atauschii_AET1Gv20039000.6 AET1Gv20039000.6 |
Low | No | 440 | OG0003647 | Get ORF Coding potential... Type: noncoding Potential: -0.215 Folding energies... MFEI: -25.373 AMFE: -0.585 GC content %: 43.409 | |
| Atauschii_AET1Gv20039000.7 AET1Gv20039000.7 |
Low | No | 1107 | OG0003647 | Get ORF Coding potential... Type: noncoding Potential: -1.087 Folding energies... MFEI: -26.734 AMFE: -0.630 GC content %: 42.457 |
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_AET1Gv20039000.2 | SwissProt | 2021-04-01 | O04940 | 2.42e-11 |
| Atauschii_AET1Gv20039000.4 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Atauschii_AET1Gv20039000.2 | Rfam | 14.6 | MIR1122 | 3.8e-18 |
| Atauschii_AET1Gv20039000.3 | SwissProt | 2021-04-01 | O04940 | 2.98e-11 |
| Atauschii_AET1Gv20039000.3 | Rfam | 14.6 | MIR1122 | 4.3e-18 |
| Atauschii_AET1Gv20039000.4 | SwissProt | 2021-04-01 | O04940 | 1.46e-10 |
| Atauschii_AET1Gv20039000.4 | Rfam | 14.6 | MIR1122 | 5.2e-18 |
| Atauschii_AET1Gv20039000.5 | SwissProt | 2021-04-01 | O04940 | 9.74e-12 |
| Atauschii_AET1Gv20039000.2 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Atauschii_AET1Gv20039000.6 | SwissProt | 2021-04-01 | O04940 | 4.01e-13 |
... further results
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
