Hvulgare HORVU5Hr1G078830
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_HORVU5Hr1G078830 [ HORVU5Hr1G078830] |
chr5H | 555846348 | 555849363 | r1 | Hordeum vulgare (Phytozome 13) | 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
|
|---|---|---|---|---|---|---|
| Hvulgare_HORVU5Hr1G078830.10 HORVU5Hr1G078830.10 |
High | No | 1017 | OG0045639 | Get ORF Coding potential... Type: noncoding Potential: -0.950 Folding energies... MFEI: -30.226 AMFE: -0.676 GC content %: 44.739 | |
| Hvulgare_HORVU5Hr1G078830.12 HORVU5Hr1G078830.12 |
High | No | 848 | OG0045640 | Get ORF Coding potential... Type: noncoding Potential: -1.068 Folding energies... MFEI: -27.417 AMFE: -0.651 GC content %: 42.099 | |
| Hvulgare_HORVU5Hr1G078830.19 HORVU5Hr1G078830.19 |
Low | No | 1387 | OG0045641 | Get ORF Coding potential... Type: noncoding Potential: -0.929 Folding energies... MFEI: -28.298 AMFE: -0.681 GC content %: 41.528 | |
| Hvulgare_HORVU5Hr1G078830.20 HORVU5Hr1G078830.20 |
Low | No | 1056 | OG0004162 | Get ORF Coding potential... Type: noncoding Potential: -0.691 Folding energies... MFEI: -27.358 AMFE: -0.648 GC content %: 42.235 | |
| Hvulgare_HORVU5Hr1G078830.21 HORVU5Hr1G078830.21 |
High | No | 363 | OG0192990 | Get ORF Coding potential... Type: noncoding Potential: -0.867 Folding energies... MFEI: -27.741 AMFE: -0.566 GC content %: 49.036 | |
| Hvulgare_HORVU5Hr1G078830.22 HORVU5Hr1G078830.22 |
Low | No | 463 | OG0004162 | Get ORF Coding potential... Type: noncoding Potential: -0.686 Folding energies... MFEI: -29.093 AMFE: -0.641 GC content %: 45.356 | |
| Hvulgare_HORVU5Hr1G078830.8 HORVU5Hr1G078830.8 |
High | No | 531 | OG0192991 | Get ORF Coding potential... Type: noncoding Potential: -0.988 Folding energies... MFEI: -34.049 AMFE: -0.655 GC content %: 51.977 |
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_HORVU5Hr1G078830.20 | SwissProt | 2021-04-01 | B1XL18 | 5.87e-6 |
| Hvulgare_HORVU5Hr1G078830.22 | SwissProt | 2021-04-01 | B1XL18 | 2.31e-4 |
| Hvulgare_HORVU5Hr1G078830.19 | RepBase (RepeatMasker) | 2014-01-31 | LINE/L1 | |
| Hvulgare_HORVU5Hr1G078830.20 | 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).
