Hvulgare HORVU4Hr1G017000
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_HORVU4Hr1G017000 [ HORVU4Hr1G017000] |
chr4H | 72021625 | 72025123 | 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_HORVU4Hr1G017000.1 HORVU4Hr1G017000.1 |
Low | No | 1513 | OG0042878 | Get ORF Coding potential... Type: noncoding Potential: -1.198 Folding energies... MFEI: -24.336 AMFE: -0.620 GC content %: 39.260 | |
| Hvulgare_HORVU4Hr1G017000.18 HORVU4Hr1G017000.18 |
Low | No | 1052 | OG0005888 | Get ORF Coding potential... Type: noncoding Potential: -0.865 Folding energies... MFEI: -27.243 AMFE: -0.640 GC content %: 42.586 | |
| Hvulgare_HORVU4Hr1G017000.2 HORVU4Hr1G017000.2 |
Low | No | 964 | OG0005888 | Get ORF Coding potential... Type: noncoding Potential: -0.929 Folding energies... MFEI: -26.359 AMFE: -0.640 GC content %: 41.183 | |
| Hvulgare_HORVU4Hr1G017000.23 HORVU4Hr1G017000.23 |
Low | No | 1294 | OG0042879 | Get ORF Coding potential... Type: noncoding Potential: -0.922 Folding energies... MFEI: -26.963 AMFE: -0.630 GC content %: 42.813 | |
| Hvulgare_HORVU4Hr1G017000.27 HORVU4Hr1G017000.27 |
Low | No | 1508 | OG0042880 | Get ORF Coding potential... Type: noncoding Potential: -0.972 Folding energies... MFEI: -30.341 AMFE: -0.651 GC content %: 46.618 | |
| Hvulgare_HORVU4Hr1G017000.35 HORVU4Hr1G017000.35 |
High | No | 542 | OG0042881 | Get ORF Coding potential... Type: noncoding Potential: -0.913 Folding energies... MFEI: -27.509 AMFE: -0.629 GC content %: 43.727 | |
| Hvulgare_HORVU4Hr1G017000.36 HORVU4Hr1G017000.36 |
High | No | 960 | OG0042882 | Get ORF Coding potential... Type: noncoding Potential: -0.875 Folding energies... MFEI: -31.896 AMFE: -0.614 GC content %: 51.979 | |
| Hvulgare_HORVU4Hr1G017000.38 HORVU4Hr1G017000.38 |
High | No | 522 | OG0042883 | Get ORF Coding potential... Type: noncoding Potential: -0.946 Folding energies... MFEI: -31.667 AMFE: -0.643 GC content %: 49.234 | |
| Hvulgare_HORVU4Hr1G017000.7 HORVU4Hr1G017000.7 |
Low | No | 955 | OG0005888 | Get ORF Coding potential... Type: noncoding Potential: -0.805 Folding energies... MFEI: -27.319 AMFE: -0.635 GC content %: 43.037 |
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_HORVU4Hr1G017000.27 | RepBase (RepeatMasker) | 2014-01-31 | DNA/CMC-EnSpm; DNA/PIF-Harbinger | |
| Hvulgare_HORVU4Hr1G017000.7 | RepBase (RepeatMasker) | 2014-01-31 | DNA/CMC-EnSpm; DNA/PIF-Harbinger | |
| Hvulgare_HORVU4Hr1G017000.1 | RepBase (RepeatMasker) | 2014-01-31 | DNA/CMC-EnSpm | |
| Hvulgare_HORVU4Hr1G017000.18 | RepBase (RepeatMasker) | 2014-01-31 | DNA/CMC-EnSpm; DNA/PIF-Harbinger | |
| Hvulgare_HORVU4Hr1G017000.2 | RepBase (RepeatMasker) | 2014-01-31 | DNA/CMC-EnSpm; DNA/PIF-Harbinger | |
| Hvulgare_HORVU4Hr1G017000.23 | RepBase (RepeatMasker) | 2014-01-31 | DNA/CMC-EnSpm; DNA/PIF-Harbinger |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
