Atauschii AET3Gv20687400
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_AET3Gv20687400 [ AET3Gv20687400] |
3D | 408348854 | 408360862 | 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_AET3Gv20687400.1 AET3Gv20687400.1 |
Low | No | 902 | OG0073127 | Get ORF Coding potential... Type: noncoding Potential: -0.750 Folding energies... MFEI: -26.286 AMFE: -0.634 GC content %: 41.463 | |
| Atauschii_AET3Gv20687400.11 AET3Gv20687400.11 |
Low | Yes | 5023 | OG0001297 | Get ORF Coding potential... Type: noncoding Potential: -0.962 Folding energies... MFEI: -28.941 AMFE: -0.733 GC content %: 39.458 | |
| Atauschii_AET3Gv20687400.12 AET3Gv20687400.12 |
Low | Yes | 4058 | OG0001297 | Get ORF Coding potential... Type: noncoding Potential: -0.947 Folding energies... MFEI: -29.899 AMFE: -0.741 GC content %: 40.365 | |
| Atauschii_AET3Gv20687400.13 AET3Gv20687400.13 |
High | No | 2085 | OG0001297 | Get ORF Coding potential... Type: noncoding Potential: -1.207 Folding energies... MFEI: -30.278 AMFE: -0.665 GC content %: 45.516 | |
| Atauschii_AET3Gv20687400.17 AET3Gv20687400.17 |
High | No | 1993 | OG0001297 | Get ORF Coding potential... Type: noncoding Potential: -1.181 Folding energies... MFEI: -28.966 AMFE: -0.648 GC content %: 44.706 | |
| Atauschii_AET3Gv20687400.18 AET3Gv20687400.18 |
High | No | 2418 | OG0001297 | Get ORF Coding potential... Type: noncoding Potential: -1.224 Folding energies... MFEI: -28.511 AMFE: -0.657 GC content %: 43.383 | |
| Atauschii_AET3Gv20687400.2 AET3Gv20687400.2 |
Low | Yes | 5777 | OG0001297 | Get ORF Coding potential... Type: noncoding Potential: -0.971 Folding energies... MFEI: -29.358 AMFE: -0.732 GC content %: 40.107 | |
| Atauschii_AET3Gv20687400.3 AET3Gv20687400.3 |
Low | Yes | 5786 | OG0001297 | Get ORF Coding potential... Type: noncoding Potential: -0.971 Folding energies... MFEI: -28.666 AMFE: -0.730 GC content %: 39.250 | |
| Atauschii_AET3Gv20687400.4 AET3Gv20687400.4 |
Low | Yes | 6375 | OG0001297 | Get ORF Coding potential... Type: noncoding Potential: -0.976 Folding energies... MFEI: -29.139 AMFE: -0.729 GC content %: 39.969 | |
| Atauschii_AET3Gv20687400.5 AET3Gv20687400.5 |
Low | Yes | 5481 | OG0001297 | Get ORF Coding potential... Type: noncoding Potential: -0.968 Folding energies... MFEI: -28.321 AMFE: -0.726 GC content %: 39.026 | |
| Atauschii_AET3Gv20687400.6 AET3Gv20687400.6 |
Low | Yes | 5067 | OG0001297 | Get ORF Coding potential... Type: noncoding Potential: -0.963 Folding energies... MFEI: -27.983 AMFE: -0.732 GC content %: 38.228 | |
| Atauschii_AET3Gv20687400.7 AET3Gv20687400.7 |
Low | Yes | 4399 | OG0001297 | Get ORF Coding potential... Type: noncoding Potential: -1.273 Folding energies... MFEI: -29.632 AMFE: -0.736 GC content %: 40.236 | |
| Atauschii_AET3Gv20687400.8 AET3Gv20687400.8 |
Low | Yes | 5079 | OG0001297 | Get ORF Coding potential... Type: noncoding Potential: -0.963 Folding energies... MFEI: -29.025 AMFE: -0.734 GC content %: 39.535 |
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_AET3Gv20687400.6 | Rfam | 14.6 | MIR1122 | 7.1e-17 |
| Atauschii_AET3Gv20687400.12 | Rfam | 14.6 | MIR1122 | 5.7e-17 |
| Atauschii_AET3Gv20687400.7 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Atauschii_AET3Gv20687400.2 | RepBase (RepeatMasker) | 2014-01-31 | DNA/CMC-EnSpm; DNA/TcMar-Stowaway | |
| Atauschii_AET3Gv20687400.7 | Rfam | 14.6 | MIR1122 | 6.2e-17 |
| Atauschii_AET3Gv20687400.2 | Rfam | 14.6 | MIR1122 | 8.1e-17 |
| Atauschii_AET3Gv20687400.8 | RepBase (RepeatMasker) | 2014-01-31 | DNA/CMC-EnSpm; DNA/TcMar-Stowaway | |
| Atauschii_AET3Gv20687400.3 | RepBase (RepeatMasker) | 2014-01-31 | DNA/CMC-EnSpm; DNA/TcMar-Stowaway | |
| Atauschii_AET3Gv20687400.8 | Rfam | 14.6 | MIR1122 | 7.1e-17 |
| Atauschii_AET3Gv20687400.3 | Rfam | 14.6 | MIR1122 | 8.1e-17 |
... further results
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
