Hvulgare HORVU4Hr1G042640
From GreeNC
Gene information
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_HORVU4Hr1G042640 [ HORVU4Hr1G042640] |
chr4H | 337960605 | 337984579 | r1 | Hordeum vulgare (Phytozome 13) | Coding? Yes |
Transcript features
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_HORVU4Hr1G042640.1 HORVU4Hr1G042640.1 |
Low | No | 4061 | OG0012791 | Get ORF Coding potential... Type: noncoding Potential: -1.235 Folding energies... MFEI: -28.033 AMFE: -0.640 GC content %: 43.832 | |
| Hvulgare_HORVU4Hr1G042640.10 HORVU4Hr1G042640.10 |
Low | No | 935 | OG0043314 | Get ORF Coding potential... Type: noncoding Potential: -1.209 Folding energies... MFEI: -36.738 AMFE: -0.686 GC content %: 53.583 | |
| Hvulgare_HORVU4Hr1G042640.11 HORVU4Hr1G042640.11 |
Low | No | 2043 | OG0043315 | Get ORF Coding potential... Type: noncoding Potential: -0.969 Folding energies... MFEI: -31.331 AMFE: -0.705 GC content %: 44.444 | |
| Hvulgare_HORVU4Hr1G042640.12 HORVU4Hr1G042640.12 |
High | No | 397 | OG0002142 | Get ORF Coding potential... Type: noncoding Potential: -1.124 Folding energies... MFEI: -44.610 AMFE: -0.661 GC content %: 67.506 | |
| Hvulgare_HORVU4Hr1G042640.14 HORVU4Hr1G042640.14 |
Low | No | 633 | OG0043316 | Get ORF Coding potential... Type: noncoding Potential: -1.176 Folding energies... MFEI: -37.299 AMFE: -0.643 GC content %: 57.978 | |
| Hvulgare_HORVU4Hr1G042640.15 HORVU4Hr1G042640.15 |
Low | No | 975 | OG0043317 | Get ORF Coding potential... Type: noncoding Potential: -1.212 Folding energies... MFEI: -35.549 AMFE: -0.686 GC content %: 51.795 | |
| Hvulgare_HORVU4Hr1G042640.16 HORVU4Hr1G042640.16 |
Low | No | 1517 | OG0043318 | Get ORF Coding potential... Type: noncoding Potential: -0.918 Folding energies... MFEI: -23.830 AMFE: -0.647 GC content %: 36.849 | |
| Hvulgare_HORVU4Hr1G042640.2 HORVU4Hr1G042640.2 |
Low | No | 3445 | OG0012791 | Get ORF Coding potential... Type: noncoding Potential: -1.228 Folding energies... MFEI: -27.100 AMFE: -0.637 GC content %: 42.525 | |
| Hvulgare_HORVU4Hr1G042640.3 HORVU4Hr1G042640.3 |
Low | No | 848 | OG0043319 | Get ORF Coding potential... Type: noncoding Potential: -0.960 Folding energies... MFEI: -32.241 AMFE: -0.614 GC content %: 52.476 | |
| Hvulgare_HORVU4Hr1G042640.4 HORVU4Hr1G042640.4 |
High | No | 447 | OG0002142 | Get ORF Coding potential... Type: noncoding Potential: -1.139 Folding energies... MFEI: -46.957 AMFE: -0.684 GC content %: 68.680 | |
| Hvulgare_HORVU4Hr1G042640.5 HORVU4Hr1G042640.5 |
Low | No | 1061 | OG0043320 | Get ORF Coding potential... Type: noncoding Potential: -1.217 Folding energies... MFEI: -37.144 AMFE: -0.688 GC content %: 54.006 | |
| Hvulgare_HORVU4Hr1G042640.6 HORVU4Hr1G042640.6 |
Low | No | 769 | OG0002142 | Get ORF Coding potential... Type: noncoding Potential: -1.107 Folding energies... MFEI: -36.957 AMFE: -0.640 GC content %: 57.737 | |
| Hvulgare_HORVU4Hr1G042640.7 HORVU4Hr1G042640.7 |
Low | No | 483 | OG0002142 | Get ORF Coding potential... Type: noncoding Potential: -1.110 Folding energies... MFEI: -41.801 AMFE: -0.662 GC content %: 63.147 | |
| Hvulgare_HORVU4Hr1G042640.9 HORVU4Hr1G042640.9 |
High | No | 414 | OG0002142 | Get ORF Coding potential... Type: noncoding Potential: -1.129 Folding energies... MFEI: -44.034 AMFE: -0.668 GC content %: 65.942 |
Matches to external databases
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_HORVU4Hr1G042640.3 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Gypsy | |
| Hvulgare_HORVU4Hr1G042640.11 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Copia | |
| Hvulgare_HORVU4Hr1G042640.5 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Copia | |
| Hvulgare_HORVU4Hr1G042640.14 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Copia | |
| Hvulgare_HORVU4Hr1G042640.6 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Copia | |
| Hvulgare_HORVU4Hr1G042640.15 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Copia | |
| Hvulgare_HORVU4Hr1G042640.7 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Copia | |
| Hvulgare_HORVU4Hr1G042640.16 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Copia | |
| Hvulgare_HORVU4Hr1G042640.1 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Gypsy | |
| Hvulgare_HORVU4Hr1G042640.2 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Gypsy |
... further results
Gene models
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
