Atauschii AET2Gv20996000
From GreeNC
Gene information
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_AET2Gv20996000 [ AET2Gv20996000] |
2D | 556926837 | 556930145 | v4 | Aegilops tauschii (Ensembl Plants 51) | Coding? Yes |
Transcript features
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_AET2Gv20996000.10 AET2Gv20996000.10 |
Low | Yes | 2583 | OG0000687 | Get ORF Coding potential... Type: noncoding Potential: -1.159 Folding energies... MFEI: -27.480 AMFE: -0.679 GC content %: 40.496 | |
| Atauschii_AET2Gv20996000.11 AET2Gv20996000.11 |
Low | Yes | 2614 | OG0000687 | Get ORF Coding potential... Type: noncoding Potential: -1.160 Folding energies... MFEI: -27.399 AMFE: -0.674 GC content %: 40.627 | |
| Atauschii_AET2Gv20996000.12 AET2Gv20996000.12 |
Low | Yes | 2756 | OG0000687 | Get ORF Coding potential... Type: noncoding Potential: -1.163 Folding energies... MFEI: -27.645 AMFE: -0.677 GC content %: 40.856 | |
| Atauschii_AET2Gv20996000.13 AET2Gv20996000.13 |
Low | Yes | 2983 | OG0000687 | Get ORF Coding potential... Type: noncoding Potential: -1.117 Folding energies... MFEI: -27.670 AMFE: -0.684 GC content %: 40.463 | |
| Atauschii_AET2Gv20996000.15 AET2Gv20996000.15 |
Low | Yes | 1598 | OG0000687 | Get ORF Coding potential... Type: noncoding Potential: -1.248 Folding energies... MFEI: -29.962 AMFE: -0.636 GC content %: 47.121 | |
| Atauschii_AET2Gv20996000.16 AET2Gv20996000.16 |
Low | Yes | 964 | OG0000687 | Get ORF Coding potential... Type: noncoding Potential: -1.185 Folding energies... MFEI: -28.050 AMFE: -0.648 GC content %: 43.257 | |
| Atauschii_AET2Gv20996000.17 AET2Gv20996000.17 |
Low | Yes | 1259 | OG0000687 | Get ORF Coding potential... Type: noncoding Potential: -0.998 Folding energies... MFEI: -29.960 AMFE: -0.631 GC content %: 47.498 | |
| Atauschii_AET2Gv20996000.18 AET2Gv20996000.18 |
Low | Yes | 2742 | OG0000687 | Get ORF Coding potential... Type: noncoding Potential: -1.084 Folding energies... MFEI: -28.027 AMFE: -0.676 GC content %: 41.466 | |
| Atauschii_AET2Gv20996000.19 AET2Gv20996000.19 |
Low | Yes | 1608 | OG0000687 | Get ORF Coding potential... Type: noncoding Potential: -1.136 Folding energies... MFEI: -30.777 AMFE: -0.641 GC content %: 48.010 | |
| Atauschii_AET2Gv20996000.2 AET2Gv20996000.2 |
Low | Yes | 1553 | OG0000687 | Get ORF Coding potential... Type: noncoding Potential: -1.024 Folding energies... MFEI: -30.850 AMFE: -0.653 GC content %: 47.263 | |
| Atauschii_AET2Gv20996000.20 AET2Gv20996000.20 |
Low | Yes | 2843 | OG0000687 | Get ORF Coding potential... Type: noncoding Potential: -1.164 Folding energies... MFEI: -27.566 AMFE: -0.680 GC content %: 40.556 | |
| Atauschii_AET2Gv20996000.3 AET2Gv20996000.3 |
Low | Yes | 1467 | OG0000687 | Get ORF Coding potential... Type: noncoding Potential: -1.017 Folding energies... MFEI: -30.627 AMFE: -0.649 GC content %: 47.171 | |
| Atauschii_AET2Gv20996000.5 AET2Gv20996000.5 |
Low | Yes | 1598 | OG0000687 | Get ORF Coding potential... Type: noncoding Potential: -1.124 Folding energies... MFEI: -23.292 AMFE: -0.659 GC content %: 35.357 | |
| Atauschii_AET2Gv20996000.6 AET2Gv20996000.6 |
Low | Yes | 2618 | OG0000687 | Get ORF Coding potential... Type: noncoding Potential: -1.160 Folding energies... MFEI: -27.196 AMFE: -0.669 GC content %: 40.680 | |
| Atauschii_AET2Gv20996000.7 AET2Gv20996000.7 |
Low | Yes | 1455 | OG0000687 | Get ORF Coding potential... Type: noncoding Potential: -1.053 Folding energies... MFEI: -30.873 AMFE: -0.656 GC content %: 47.079 | |
| Atauschii_AET2Gv20996000.8 AET2Gv20996000.8 |
Low | Yes | 2657 | OG0000687 | Get ORF Coding potential... Type: noncoding Potential: -1.161 Folding energies... MFEI: -27.576 AMFE: -0.675 GC content %: 40.873 | |
| Atauschii_AET2Gv20996000.9 AET2Gv20996000.9 |
Low | Yes | 2788 | OG0000687 | Get ORF Coding potential... Type: noncoding Potential: -1.163 Folding energies... MFEI: -27.263 AMFE: -0.667 GC content %: 40.854 |
Matches to external databases
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_AET2Gv20996000.8 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Gypsy | |
| Atauschii_AET2Gv20996000.7 | Rfam | 14.6 | let-7 | 0.0023 |
| Atauschii_AET2Gv20996000.20 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Gypsy | |
| Atauschii_AET2Gv20996000.2 | Rfam | 14.6 | let-7 | 0.0025 |
| Atauschii_AET2Gv20996000.15 | Rfam | 14.6 | let-7 | 0.0025 |
| Atauschii_AET2Gv20996000.13 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Gypsy | |
| Atauschii_AET2Gv20996000.9 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Gypsy | |
| Atauschii_AET2Gv20996000.8 | Rfam | 14.6 | let-7 | 0.0042 |
| Atauschii_AET2Gv20996000.3 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Gypsy | |
| Atauschii_AET2Gv20996000.20 | Rfam | 14.6 | let-7 | 0.0045 |
... further results
Gene models
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
