Hvulgare HORVU5Hr1G035370
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_HORVU5Hr1G035370 [ HORVU5Hr1G035370] |
chr5H | 245562252 | 245583062 | 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_HORVU5Hr1G035370.14 HORVU5Hr1G035370.14 |
Low | Yes | 1468 | OG0003761 | Get ORF Coding potential... Type: coding Potential: 0.069 Folding energies... MFEI: -28.699 AMFE: -0.774 GC content %: 37.057 | |
| Hvulgare_HORVU5Hr1G035370.21 HORVU5Hr1G035370.21 |
Low | Yes | 1125 | OG0003761 | Get ORF Coding potential... Type: coding Potential: 0.136 Folding energies... MFEI: -28.560 AMFE: -0.765 GC content %: 37.333 | |
| Hvulgare_HORVU5Hr1G035370.23 HORVU5Hr1G035370.23 |
Low | Yes | 888 | OG0003761 | Get ORF Coding potential... Type: noncoding Potential: -0.518 Folding energies... MFEI: -30.169 AMFE: -0.809 GC content %: 37.275 | |
| Hvulgare_HORVU5Hr1G035370.3 HORVU5Hr1G035370.3 |
Low | Yes | 2614 | OG0044816 | Get ORF Coding potential... Type: noncoding Potential: -0.456 Folding energies... MFEI: -27.716 AMFE: -0.701 GC content %: 39.518 | |
| Hvulgare_HORVU5Hr1G035370.6 HORVU5Hr1G035370.6 |
Low | Yes | 2906 | OG0044817 | Get ORF Coding potential... Type: coding Potential: 0.066 Folding energies... MFEI: -27.701 AMFE: -0.713 GC content %: 38.851 | |
| Hvulgare_HORVU5Hr1G035370.7 HORVU5Hr1G035370.7 |
Low | Yes | 2867 | OG0044818 | Get ORF Coding potential... Type: noncoding Potential: -0.406 Folding energies... MFEI: -27.921 AMFE: -0.729 GC content %: 38.298 |
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_HORVU5Hr1G035370.7 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Hvulgare_HORVU5Hr1G035370.14 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Hvulgare_HORVU5Hr1G035370.21 | Rfam | 14.6 | MIR1122 | 7.0e-15 |
| Hvulgare_HORVU5Hr1G035370.21 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Hvulgare_HORVU5Hr1G035370.23 | Rfam | 14.6 | MIR1122 | 5.5e-15 |
| Hvulgare_HORVU5Hr1G035370.23 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Hvulgare_HORVU5Hr1G035370.3 | Rfam | 14.6 | MIR1122 | 1.6e-14 |
| Hvulgare_HORVU5Hr1G035370.3 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway; LINE/RTE-BovB | |
| Hvulgare_HORVU5Hr1G035370.6 | Rfam | 14.6 | MIR1122 | 1.8e-14 |
| Hvulgare_HORVU5Hr1G035370.6 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway; LINE/RTE-BovB |
... further results
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
