Hvulgare HORVU4Hr1G004300
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
|
|---|---|---|---|---|---|---|
| Hvulgare_HORVU4Hr1G004300 [ HORVU4Hr1G004300] |
chr4H | 9800922 | 9801820 | r1 | Hordeum vulgare (Phytozome 13) | Coding? No |
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
|
|---|---|---|---|---|---|---|
| Hvulgare_HORVU4Hr1G004300.1 HORVU4Hr1G004300.1 |
Low | No | 245 | OG0042567 | Get ORF Coding potential... Type: noncoding Potential: -1.285 Folding energies... MFEI: -23.469 AMFE: -0.593 GC content %: 39.592 | |
| Hvulgare_HORVU4Hr1G004300.2 HORVU4Hr1G004300.2 |
Low | No | 225 | OG0042568 | Get ORF Coding potential... Type: noncoding Potential: -1.265 Folding energies... MFEI: -18.756 AMFE: -0.502 GC content %: 37.333 | |
| Hvulgare_HORVU4Hr1G004300.3 HORVU4Hr1G004300.3 |
Low | No | 301 | OG0192764 | Get ORF Coding potential... Type: noncoding Potential: -1.439 Folding energies... MFEI: -23.821 AMFE: -0.658 GC content %: 36.213 | |
| Hvulgare_HORVU4Hr1G004300.4 HORVU4Hr1G004300.4 |
High | No | 282 | OG0192765 | Get ORF Coding potential... Type: noncoding Potential: -1.436 Folding energies... MFEI: -24.184 AMFE: -0.669 GC content %: 36.170 | |
| Hvulgare_HORVU4Hr1G004300.5 HORVU4Hr1G004300.5 |
Low | No | 291 | OG0042569 | Get ORF Coding potential... Type: noncoding Potential: -0.928 Folding energies... MFEI: -22.165 AMFE: -0.576 GC content %: 38.488 |
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 |
|---|---|---|---|---|
| Hvulgare_HORVU4Hr1G004300.5 | RepBase (RepeatMasker) | 2014-01-31 | LINE/L1 | |
| Hvulgare_HORVU4Hr1G004300.3 | SwissProt | 2021-04-01 | P0C2F6 | 1.22e-5 |
| Hvulgare_HORVU4Hr1G004300.1 | RepBase (RepeatMasker) | 2014-01-31 | LINE/L1 | |
| Hvulgare_HORVU4Hr1G004300.2 | RepBase (RepeatMasker) | 2014-01-31 | LINE/L1 | |
| Hvulgare_HORVU4Hr1G004300.3 | RepBase (RepeatMasker) | 2014-01-31 | LINE/L1 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
