Hvulgare HORVU2Hr1G047890
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_HORVU2Hr1G047890 [ HORVU2Hr1G047890] |
chr2H | 265523399 | 265528614 | 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_HORVU2Hr1G047890.10 HORVU2Hr1G047890.10 |
Low | No | 1153 | OG0005772 | Get ORF Coding potential... Type: noncoding Potential: -0.119 Folding energies... MFEI: -30.460 AMFE: -0.663 GC content %: 45.967 | |
| Hvulgare_HORVU2Hr1G047890.11 HORVU2Hr1G047890.11 |
Low | No | 969 | OG0038547 | Get ORF Coding potential... Type: noncoding Potential: -0.271 Folding energies... MFEI: -31.734 AMFE: -0.609 GC content %: 52.116 | |
| Hvulgare_HORVU2Hr1G047890.12 HORVU2Hr1G047890.12 |
Low | No | 1165 | OG0005772 | Get ORF Coding potential... Type: noncoding Potential: -0.731 Folding energies... MFEI: -30.893 AMFE: -0.662 GC content %: 46.695 | |
| Hvulgare_HORVU2Hr1G047890.13 HORVU2Hr1G047890.13 |
Low | No | 1162 | OG0005772 | Get ORF Coding potential... Type: noncoding Potential: -0.823 Folding energies... MFEI: -31.325 AMFE: -0.672 GC content %: 46.644 | |
| Hvulgare_HORVU2Hr1G047890.15 HORVU2Hr1G047890.15 |
Low | No | 1345 | OG0038548 | Get ORF Coding potential... Type: noncoding Potential: -0.865 Folding energies... MFEI: -29.606 AMFE: -0.663 GC content %: 44.684 | |
| Hvulgare_HORVU2Hr1G047890.16 HORVU2Hr1G047890.16 |
High | No | 824 | OG0038549 | Get ORF Coding potential... Type: noncoding Potential: -0.860 Folding energies... MFEI: -31.723 AMFE: -0.662 GC content %: 47.937 | |
| Hvulgare_HORVU2Hr1G047890.17 HORVU2Hr1G047890.17 |
High | No | 526 | OG0038550 | Get ORF Coding potential... Type: noncoding Potential: -1.022 Folding energies... MFEI: -30.665 AMFE: -0.667 GC content %: 46.008 | |
| Hvulgare_HORVU2Hr1G047890.8 HORVU2Hr1G047890.8 |
Low | No | 297 | OG0002636 | Get ORF Coding potential... Type: noncoding Potential: -0.897 Folding energies... MFEI: -38.148 AMFE: -0.651 GC content %: 58.586 | |
| Hvulgare_HORVU2Hr1G047890.9 HORVU2Hr1G047890.9 |
Low | No | 1553 | OG0038551 | Get ORF Coding potential... Type: noncoding Potential: -0.203 Folding energies... MFEI: -33.329 AMFE: -0.664 GC content %: 50.161 |
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_HORVU2Hr1G047890.9 | SwissProt | 2021-04-01 | Q651E8 | 7.29e-11 |
| Hvulgare_HORVU2Hr1G047890.11 | SwissProt | 2021-04-01 | Q651E8 | 4.71e-11 |
| Hvulgare_HORVU2Hr1G047890.11 | RepBase (RepeatMasker) | 2014-01-31 | DNA/PIF-Harbinger | |
| Hvulgare_HORVU2Hr1G047890.12 | SwissProt | 2021-04-01 | G5ECU1 | 5.89e-7 |
| Hvulgare_HORVU2Hr1G047890.9 | RepBase (RepeatMasker) | 2014-01-31 | DNA/PIF-Harbinger | |
| Hvulgare_HORVU2Hr1G047890.13 | SwissProt | 2021-04-01 | G5ECU1 | 3.9e-7 |
| Hvulgare_HORVU2Hr1G047890.15 | SwissProt | 2021-04-01 | G5ECU1 | 4.98e-7 |
| Hvulgare_HORVU2Hr1G047890.8 | SwissProt | 2021-04-01 | Q9M1X5 | 1.37e-9 |
| Hvulgare_HORVU2Hr1G047890.10 | SwissProt | 2021-04-01 | Q651E8 | 7.81e-11 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
