Hvulgare HORVU1Hr1G035160
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_HORVU1Hr1G035160 [ HORVU1Hr1G035160] |
chr1H | 230540114 | 230543607 | r1 | Hordeum vulgare (Phytozome 13) | Coding? No |
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_HORVU1Hr1G035160.1 HORVU1Hr1G035160.1 |
Low | No | 1923 | OG0005692 | Get ORF Coding potential... Type: noncoding Potential: -0.813 Folding energies... MFEI: -24.415 AMFE: -0.561 GC content %: 43.526 | |
| Hvulgare_HORVU1Hr1G035160.2 HORVU1Hr1G035160.2 |
Low | Yes | 2892 | OG0036251 | Get ORF Coding potential... Type: noncoding Potential: -0.862 Folding energies... MFEI: -25.062 AMFE: -0.639 GC content %: 39.212 | |
| Hvulgare_HORVU1Hr1G035160.3 HORVU1Hr1G035160.3 |
Low | Yes | 3058 | OG0005692 | Get ORF Coding potential... Type: noncoding Potential: -0.867 Folding energies... MFEI: -24.817 AMFE: -0.619 GC content %: 40.124 | |
| Hvulgare_HORVU1Hr1G035160.4 HORVU1Hr1G035160.4 |
High | No | 900 | OG0036252 | Get ORF Coding potential... Type: noncoding Potential: -0.941 Folding energies... MFEI: -26.100 AMFE: -0.498 GC content %: 52.444 | |
| Hvulgare_HORVU1Hr1G035160.5 HORVU1Hr1G035160.5 |
Low | No | 2306 | OG0005692 | Get ORF Coding potential... Type: noncoding Potential: -0.837 Folding energies... MFEI: -24.193 AMFE: -0.577 GC content %: 41.934 | |
| Hvulgare_HORVU1Hr1G035160.6 HORVU1Hr1G035160.6 |
Low | No | 297 | OG0036253 | Get ORF Coding potential... Type: noncoding Potential: -0.386 Folding energies... MFEI: -27.138 AMFE: -0.640 GC content %: 42.424 |
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_HORVU1Hr1G035160.3 | SwissProt | 2021-04-01 | P49100 | 4.92e-4 |
| Hvulgare_HORVU1Hr1G035160.5 | SwissProt | 2021-04-01 | P49100 | 3.61e-4 |
| Hvulgare_HORVU1Hr1G035160.6 | SwissProt | 2021-04-01 | P49100 | 4.5e-6 |
| Hvulgare_HORVU1Hr1G035160.2 | Rfam | 14.6 | MIR1122 | 8.4e-8 |
| Hvulgare_HORVU1Hr1G035160.1 | SwissProt | 2021-04-01 | P49100 | 2.95e-4 |
| Hvulgare_HORVU1Hr1G035160.3 | Rfam | 14.6 | MIR1122 | 8.9e-8 |
| Hvulgare_HORVU1Hr1G035160.2 | SwissProt | 2021-04-01 | P49100 | 4.05e-4 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
