Atauschii AET1Gv20279200
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_AET1Gv20279200 [ AET1Gv20279200] |
1D | 112282225 | 112295575 | 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_AET1Gv20279200.1 AET1Gv20279200.1 |
Low | Yes | 3254 | OG0006779 | Get ORF Coding potential... Type: noncoding Potential: -1.211 Folding energies... MFEI: -28.872 AMFE: -0.685 GC content %: 42.163 | |
| Atauschii_AET1Gv20279200.2 AET1Gv20279200.2 |
Low | Yes | 4089 | OG0006779 | Get ORF Coding potential... Type: noncoding Potential: -1.224 Folding energies... MFEI: -29.215 AMFE: -0.693 GC content %: 42.186 | |
| Atauschii_AET1Gv20279200.3 AET1Gv20279200.3 |
Low | Yes | 3758 | OG0006779 | Get ORF Coding potential... Type: noncoding Potential: -1.220 Folding energies... MFEI: -28.949 AMFE: -0.695 GC content %: 41.644 | |
| Atauschii_AET1Gv20279200.4 AET1Gv20279200.4 |
High | No | 1343 | OG0006779 | Get ORF Coding potential... Type: noncoding Potential: -1.129 Folding energies... MFEI: -30.521 AMFE: -0.667 GC content %: 45.793 | |
| Atauschii_AET1Gv20279200.8 AET1Gv20279200.8 |
Low | No | 707 | OG0006779 | Get ORF Coding potential... Type: noncoding Potential: -0.756 Folding energies... MFEI: -28.996 AMFE: -0.635 GC content %: 45.686 |
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_AET1Gv20279200.1 | RepBase (RepeatMasker) | 2014-01-31 | DNA; DNA/PIF-Harbinger; DNA/TcMar-Stowaway | |
| Atauschii_AET1Gv20279200.2 | RepBase (RepeatMasker) | 2014-01-31 | DNA; DNA/PIF-Harbinger; DNA/TcMar-Stowaway | |
| Atauschii_AET1Gv20279200.8 | SwissProt | 2021-04-01 | Q9LDD5 | 5.59e-10 |
| Atauschii_AET1Gv20279200.3 | RepBase (RepeatMasker) | 2014-01-31 | DNA; DNA/PIF-Harbinger; DNA/TcMar-Stowaway | |
| Atauschii_AET1Gv20279200.1 | Rfam | 14.6 | MIR1122 | 3.9e-14 |
| Atauschii_AET1Gv20279200.2 | Rfam | 14.6 | MIR1122 | 5.0e-14 |
| Atauschii_AET1Gv20279200.3 | Rfam | 14.6 | MIR1122 | 4.6e-14 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
