Hvulgare HORVU1Hr1G040250
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_HORVU1Hr1G040250 [ HORVU1Hr1G040250] |
chr1H | 284571341 | 284583896 | 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_HORVU1Hr1G040250.40 HORVU1Hr1G040250.40 |
Low | No | 1757 | OG0036334 | Get ORF Coding potential... Type: noncoding Potential: -0.125 Folding energies... MFEI: -29.380 AMFE: -0.673 GC content %: 43.654 | |
| Hvulgare_HORVU1Hr1G040250.46 HORVU1Hr1G040250.46 |
Low | No | 1711 | OG0036335 | Get ORF Coding potential... Type: noncoding Potential: -1.089 Folding energies... MFEI: -29.328 AMFE: -0.689 GC content %: 42.548 | |
| Hvulgare_HORVU1Hr1G040250.48 HORVU1Hr1G040250.48 |
Low | No | 2566 | OG0036336 | Get ORF Coding potential... Type: noncoding Potential: -1.267 Folding energies... MFEI: -26.387 AMFE: -0.669 GC content %: 39.439 | |
| Hvulgare_HORVU1Hr1G040250.49 HORVU1Hr1G040250.49 |
Low | No | 781 | OG0036337 | Get ORF Coding potential... Type: noncoding Potential: -1.044 Folding energies... MFEI: -28.041 AMFE: -0.615 GC content %: 45.583 |
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_HORVU1Hr1G040250.40 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Hvulgare_HORVU1Hr1G040250.46 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Hvulgare_HORVU1Hr1G040250.48 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Hvulgare_HORVU1Hr1G040250.40 | SwissProt | 2021-04-01 | Q55FJ2 | 2.37e-8 |
| Hvulgare_HORVU1Hr1G040250.46 | SwissProt | 2021-04-01 | Q6TEN6 | 5.03e-6 |
| Hvulgare_HORVU1Hr1G040250.49 | SwissProt | 2021-04-01 | P20484 | 4.66e-4 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
