Hvulgare HORVU3Hr1G055720
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_HORVU3Hr1G055720 [ HORVU3Hr1G055720] |
chr3H | 414266850 | 414272369 | 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_HORVU3Hr1G055720.31 HORVU3Hr1G055720.31 |
Low | No | 1328 | OG0041214 | Get ORF Coding potential... Type: noncoding Potential: -0.005 Folding energies... MFEI: -29.149 AMFE: -0.674 GC content %: 43.223 | |
| Hvulgare_HORVU3Hr1G055720.34 HORVU3Hr1G055720.34 |
Low | No | 1224 | OG0041215 | Get ORF Coding potential... Type: noncoding Potential: -0.012 Folding energies... MFEI: -28.137 AMFE: -0.650 GC content %: 43.301 | |
| Hvulgare_HORVU3Hr1G055720.35 HORVU3Hr1G055720.35 |
Low | No | 1855 | OG0041216 | Get ORF Coding potential... Type: noncoding Potential: -0.066 Folding energies... MFEI: -26.900 AMFE: -0.667 GC content %: 40.323 | |
| Hvulgare_HORVU3Hr1G055720.38 HORVU3Hr1G055720.38 |
Low | No | 1117 | OG0041217 | Get ORF Coding potential... Type: noncoding Potential: -0.018 Folding energies... MFEI: -27.207 AMFE: -0.645 GC content %: 42.167 | |
| Hvulgare_HORVU3Hr1G055720.45 HORVU3Hr1G055720.45 |
High | No | 1817 | OG0041218 | Get ORF Coding potential... Type: noncoding Potential: -0.920 Folding energies... MFEI: -26.654 AMFE: -0.669 GC content %: 39.846 | |
| Hvulgare_HORVU3Hr1G055720.46 HORVU3Hr1G055720.46 |
High | No | 1446 | OG0041219 | Get ORF Coding potential... Type: noncoding Potential: -1.058 Folding energies... MFEI: -26.425 AMFE: -0.659 GC content %: 40.111 | |
| Hvulgare_HORVU3Hr1G055720.47 HORVU3Hr1G055720.47 |
High | No | 711 | OG0041220 | Get ORF Coding potential... Type: noncoding Potential: -0.974 Folding energies... MFEI: -27.018 AMFE: -0.632 GC content %: 42.757 | |
| Hvulgare_HORVU3Hr1G055720.48 HORVU3Hr1G055720.48 |
Low | No | 1276 | OG0041221 | Get ORF Coding potential... Type: noncoding Potential: -1.046 Folding energies... MFEI: -26.246 AMFE: -0.671 GC content %: 39.107 | |
| Hvulgare_HORVU3Hr1G055720.49 HORVU3Hr1G055720.49 |
High | No | 1378 | OG0012590 | Get ORF Coding potential... Type: noncoding Potential: -1.053 Folding energies... MFEI: -26.422 AMFE: -0.672 GC content %: 39.332 | |
| Hvulgare_HORVU3Hr1G055720.50 HORVU3Hr1G055720.50 |
High | No | 1375 | OG0012590 | Get ORF Coding potential... Type: noncoding Potential: -1.053 Folding energies... MFEI: -26.356 AMFE: -0.670 GC content %: 39.345 | |
| Hvulgare_HORVU3Hr1G055720.51 HORVU3Hr1G055720.51 |
High | No | 639 | OG0041222 | Get ORF Coding potential... Type: noncoding Potential: -0.956 Folding energies... MFEI: -25.430 AMFE: -0.640 GC content %: 39.750 | |
| Hvulgare_HORVU3Hr1G055720.52 HORVU3Hr1G055720.52 |
High | No | 671 | OG0041223 | Get ORF Coding potential... Type: noncoding Potential: -1.051 Folding energies... MFEI: -25.604 AMFE: -0.639 GC content %: 40.089 |
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_HORVU3Hr1G055720.48 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Gypsy | |
| Hvulgare_HORVU3Hr1G055720.31 | SwissProt | 2021-04-01 | F4JC97 | 1.2e-26 |
| Hvulgare_HORVU3Hr1G055720.34 | SwissProt | 2021-04-01 | F4JC97 | 6.75e-27 |
| Hvulgare_HORVU3Hr1G055720.35 | SwissProt | 2021-04-01 | F4JC97 | 1.03e-25 |
| Hvulgare_HORVU3Hr1G055720.38 | SwissProt | 2021-04-01 | F4JC97 | 5.24e-27 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
