Atauschii AET1Gv20594400
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_AET1Gv20594400 [ AET1Gv20594400] |
1D | 339551767 | 339556317 | 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_AET1Gv20594400.1 AET1Gv20594400.1 |
High | No | 2251 | OG0000487 | Get ORF Coding potential... Type: noncoding Potential: -1.126 Folding energies... MFEI: -29.960 AMFE: -0.692 GC content %: 43.314 | |
| Atauschii_AET1Gv20594400.10 AET1Gv20594400.10 |
High | No | 1985 | OG0000487 | Get ORF Coding potential... Type: noncoding Potential: -1.112 Folding energies... MFEI: -31.451 AMFE: -0.694 GC content %: 45.290 | |
| Atauschii_AET1Gv20594400.11 AET1Gv20594400.11 |
High | No | 2094 | OG0000487 | Get ORF Coding potential... Type: noncoding Potential: -1.120 Folding energies... MFEI: -32.144 AMFE: -0.703 GC content %: 45.750 | |
| Atauschii_AET1Gv20594400.12 AET1Gv20594400.12 |
Low | Yes | 3280 | OG0000487 | Get ORF Coding potential... Type: noncoding Potential: -1.122 Folding energies... MFEI: -29.561 AMFE: -0.720 GC content %: 41.037 | |
| Atauschii_AET1Gv20594400.13 AET1Gv20594400.13 |
Low | Yes | 3783 | OG0000487 | Get ORF Coding potential... Type: noncoding Potential: -1.140 Folding energies... MFEI: -30.066 AMFE: -0.724 GC content %: 41.501 | |
| Atauschii_AET1Gv20594400.14 AET1Gv20594400.14 |
Low | Yes | 3674 | OG0000487 | Get ORF Coding potential... Type: noncoding Potential: -1.138 Folding energies... MFEI: -29.600 AMFE: -0.720 GC content %: 41.127 | |
| Atauschii_AET1Gv20594400.15 AET1Gv20594400.15 |
Low | Yes | 3916 | OG0000487 | Get ORF Coding potential... Type: noncoding Potential: -1.254 Folding energies... MFEI: -29.566 AMFE: -0.729 GC content %: 40.552 | |
| Atauschii_AET1Gv20594400.16 AET1Gv20594400.16 |
Low | Yes | 3163 | OG0000487 | Get ORF Coding potential... Type: noncoding Potential: -1.243 Folding energies... MFEI: -31.334 AMFE: -0.727 GC content %: 43.092 | |
| Atauschii_AET1Gv20594400.18 AET1Gv20594400.18 |
High | No | 3047 | OG0000487 | Get ORF Coding potential... Type: noncoding Potential: -1.117 Folding energies... MFEI: -29.019 AMFE: -0.694 GC content %: 41.812 | |
| Atauschii_AET1Gv20594400.19 AET1Gv20594400.19 |
High | No | 2061 | OG0000487 | Get ORF Coding potential... Type: noncoding Potential: -1.220 Folding energies... MFEI: -30.121 AMFE: -0.684 GC content %: 44.056 | |
| Atauschii_AET1Gv20594400.2 AET1Gv20594400.2 |
High | No | 2312 | OG0000487 | Get ORF Coding potential... Type: noncoding Potential: -1.222 Folding energies... MFEI: -30.523 AMFE: -0.707 GC content %: 43.166 | |
| Atauschii_AET1Gv20594400.20 AET1Gv20594400.20 |
Low | Yes | 3766 | OG0000487 | Get ORF Coding potential... Type: noncoding Potential: -1.139 Folding energies... MFEI: -27.472 AMFE: -0.715 GC content %: 38.396 | |
| Atauschii_AET1Gv20594400.21 AET1Gv20594400.21 |
High | No | 1456 | OG0000487 | Get ORF Coding potential... Type: noncoding Potential: -1.172 Folding energies... MFEI: -24.670 AMFE: -0.679 GC content %: 36.332 | |
| Atauschii_AET1Gv20594400.3 AET1Gv20594400.3 |
Low | Yes | 3155 | OG0000487 | Get ORF Coding potential... Type: noncoding Potential: -1.243 Folding energies... MFEI: -31.100 AMFE: -0.720 GC content %: 43.201 | |
| Atauschii_AET1Gv20594400.4 AET1Gv20594400.4 |
High | No | 2794 | OG0000487 | Get ORF Coding potential... Type: noncoding Potential: -1.110 Folding energies... MFEI: -29.320 AMFE: -0.694 GC content %: 42.233 | |
| Atauschii_AET1Gv20594400.5 AET1Gv20594400.5 |
Low | Yes | 3039 | OG0000487 | Get ORF Coding potential... Type: noncoding Potential: -1.168 Folding energies... MFEI: -30.569 AMFE: -0.715 GC content %: 42.777 | |
| Atauschii_AET1Gv20594400.6 AET1Gv20594400.6 |
Low | Yes | 4065 | OG0000487 | Get ORF Coding potential... Type: noncoding Potential: -1.144 Folding energies... MFEI: -29.132 AMFE: -0.716 GC content %: 40.713 | |
| Atauschii_AET1Gv20594400.7 AET1Gv20594400.7 |
Low | Yes | 2721 | OG0000487 | Get ORF Coding potential... Type: noncoding Potential: -1.234 Folding energies... MFEI: -32.591 AMFE: -0.731 GC content %: 44.579 | |
| Atauschii_AET1Gv20594400.8 AET1Gv20594400.8 |
Low | Yes | 4174 | OG0000487 | Get ORF Coding potential... Type: noncoding Potential: -1.257 Folding energies... MFEI: -29.557 AMFE: -0.723 GC content %: 40.872 | |
| Atauschii_AET1Gv20594400.9 AET1Gv20594400.9 |
High | No | 1638 | OG0000487 | Get ORF Coding potential... Type: noncoding Potential: -1.067 Folding energies... MFEI: -33.486 AMFE: -0.697 GC content %: 48.046 |
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_AET1Gv20594400.6 | Rfam | 14.6 | MIR1122 | 1.5e-10 |
| Atauschii_AET1Gv20594400.15 | Rfam | 14.6 | MIR1122 | 1.5e-10 |
| Atauschii_AET1Gv20594400.6 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Atauschii_AET1Gv20594400.15 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Atauschii_AET1Gv20594400.7 | Rfam | 14.6 | MIR1122 | 1.0e-10 |
| Atauschii_AET1Gv20594400.16 | Rfam | 14.6 | MIR1122 | 1.2e-10 |
| Atauschii_AET1Gv20594400.7 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Atauschii_AET1Gv20594400.16 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Atauschii_AET1Gv20594400.8 | Rfam | 14.6 | MIR1122 | 1.6e-10 |
| Atauschii_AET1Gv20594400.20 | Rfam | 14.6 | MIR1122 | 1.4e-10 |
... further results
Gene models
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
