Hvulgare HORVU1Hr1G042870
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_HORVU1Hr1G042870 [ HORVU1Hr1G042870] |
chr1H | 310876753 | 310882980 | 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_HORVU1Hr1G042870.18 HORVU1Hr1G042870.18 |
Low | No | 3148 | OG0036406 | Get ORF Coding potential... Type: noncoding Potential: -0.022 Folding energies... MFEI: -27.262 AMFE: -0.661 GC content %: 41.233 | |
| Hvulgare_HORVU1Hr1G042870.25 HORVU1Hr1G042870.25 |
Low | No | 1490 | OG0012093 | Get ORF Coding potential... Type: noncoding Potential: -1.246 Folding energies... MFEI: -25.188 AMFE: -0.676 GC content %: 37.248 | |
| Hvulgare_HORVU1Hr1G042870.58 HORVU1Hr1G042870.58 |
High | No | 307 | OG0192327 | Get ORF Coding potential... Type: noncoding Potential: -1.224 Folding energies... MFEI: -20.163 AMFE: -0.638 GC content %: 31.596 | |
| Hvulgare_HORVU1Hr1G042870.61 HORVU1Hr1G042870.61 |
High | No | 951 | OG0012093 | Get ORF Coding potential... Type: noncoding Potential: -1.345 Folding energies... MFEI: -21.385 AMFE: -0.640 GC content %: 33.438 | |
| Hvulgare_HORVU1Hr1G042870.64 HORVU1Hr1G042870.64 |
High | No | 2857 | OG0012094 | Get ORF Coding potential... Type: noncoding Potential: -1.096 Folding energies... MFEI: -28.232 AMFE: -0.620 GC content %: 45.502 | |
| Hvulgare_HORVU1Hr1G042870.65 HORVU1Hr1G042870.65 |
High | No | 2771 | OG0012094 | Get ORF Coding potential... Type: noncoding Potential: -0.944 Folding energies... MFEI: -28.217 AMFE: -0.630 GC content %: 44.821 |
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_HORVU1Hr1G042870.18 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Copia | |
| Hvulgare_HORVU1Hr1G042870.25 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Copia | |
| Hvulgare_HORVU1Hr1G042870.18 | SwissProt | 2021-04-01 | Q09LL3 | 2.1e-19 |
| Hvulgare_HORVU1Hr1G042870.25 | SwissProt | 2021-04-01 | Q5VPG8 | 5.09e-6 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
