Hvulgare HORVU4Hr1G054820
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_HORVU4Hr1G054820 [ HORVU4Hr1G054820] |
chr4H | 459123171 | 459129211 | 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_HORVU4Hr1G054820.1 HORVU4Hr1G054820.1 |
Low | Yes | 1414 | OG0002144 | Get ORF Coding potential... Type: noncoding Potential: -0.726 Folding energies... MFEI: -30.382 AMFE: -0.705 GC content %: 43.069 | |
| Hvulgare_HORVU4Hr1G054820.2 HORVU4Hr1G054820.2 |
Low | Yes | 1275 | OG0002144 | Get ORF Coding potential... Type: noncoding Potential: -0.760 Folding energies... MFEI: -29.624 AMFE: -0.703 GC content %: 42.118 | |
| Hvulgare_HORVU4Hr1G054820.3 HORVU4Hr1G054820.3 |
Low | Yes | 1347 | OG0002144 | Get ORF Coding potential... Type: noncoding Potential: -0.721 Folding energies... MFEI: -30.401 AMFE: -0.700 GC content %: 43.430 | |
| Hvulgare_HORVU4Hr1G054820.4 HORVU4Hr1G054820.4 |
Low | Yes | 1659 | OG0002845 | Get ORF Coding potential... Type: noncoding Potential: -0.750 Folding energies... MFEI: -29.180 AMFE: -0.696 GC content %: 41.953 | |
| Hvulgare_HORVU4Hr1G054820.5 HORVU4Hr1G054820.5 |
Low | Yes | 981 | OG0002144 | Get ORF Coding potential... Type: noncoding Potential: -1.241 Folding energies... MFEI: -27.839 AMFE: -0.698 GC content %: 39.857 | |
| Hvulgare_HORVU4Hr1G054820.6 HORVU4Hr1G054820.6 |
High | No | 893 | OG0002144 | Get ORF Coding potential... Type: noncoding Potential: -0.694 Folding energies... MFEI: -31.579 AMFE: -0.656 GC content %: 48.152 | |
| Hvulgare_HORVU4Hr1G054820.7 HORVU4Hr1G054820.7 |
High | No | 1219 | OG0002845 | Get ORF Coding potential... Type: noncoding Potential: -0.741 Folding energies... MFEI: -29.204 AMFE: -0.657 GC content %: 44.463 | |
| Hvulgare_HORVU4Hr1G054820.8 HORVU4Hr1G054820.8 |
High | No | 588 | OG0002845 | Get ORF Coding potential... Type: noncoding Potential: -0.625 Folding energies... MFEI: -30.408 AMFE: -0.625 GC content %: 48.639 |
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_HORVU4Hr1G054820.2 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Hvulgare_HORVU4Hr1G054820.2 | Rfam | 14.6 | MIR1122 | 3.2e-16 |
| Hvulgare_HORVU4Hr1G054820.3 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Hvulgare_HORVU4Hr1G054820.3 | Rfam | 14.6 | MIR1122 | 3.3e-16 |
| Hvulgare_HORVU4Hr1G054820.4 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Hvulgare_HORVU4Hr1G054820.4 | Rfam | 14.6 | MIR1122 | 4.1e-16 |
| Hvulgare_HORVU4Hr1G054820.5 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Hvulgare_HORVU4Hr1G054820.5 | Rfam | 14.6 | MIR1122 | 2.4e-16 |
| Hvulgare_HORVU4Hr1G054820.1 | RepBase (RepeatMasker) | 2014-01-31 | DNA/CMC-EnSpm; DNA/TcMar-Stowaway | |
| Hvulgare_HORVU4Hr1G054820.1 | Rfam | 14.6 | MIR1122 | 3.5e-16 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
