Hvulgare HORVU6Hr1G032050
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_HORVU6Hr1G032050 [ HORVU6Hr1G032050] |
chr6H | 138340974 | 138343297 | 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_HORVU6Hr1G032050.1 HORVU6Hr1G032050.1 |
Low | No | 1424 | OG0046984 | Get ORF Coding potential... Type: noncoding Potential: -1.146 Folding energies... MFEI: -33.581 AMFE: -0.643 GC content %: 52.247 | |
| Hvulgare_HORVU6Hr1G032050.2 HORVU6Hr1G032050.2 |
Low | No | 965 | OG0046985 | Get ORF Coding potential... Type: noncoding Potential: -1.057 Folding energies... MFEI: -35.399 AMFE: -0.653 GC content %: 54.197 | |
| Hvulgare_HORVU6Hr1G032050.3 HORVU6Hr1G032050.3 |
Low | Yes | 2324 | OG0046986 | Get ORF Coding potential... Type: noncoding Potential: -1.282 Folding energies... MFEI: -31.824 AMFE: -0.685 GC content %: 46.472 | |
| Hvulgare_HORVU6Hr1G032050.4 HORVU6Hr1G032050.4 |
Low | Yes | 1796 | OG0046987 | Get ORF Coding potential... Type: noncoding Potential: -1.132 Folding energies... MFEI: -32.422 AMFE: -0.677 GC content %: 47.884 | |
| Hvulgare_HORVU6Hr1G032050.5 HORVU6Hr1G032050.5 |
Low | No | 1304 | OG0046988 | Get ORF Coding potential... Type: noncoding Potential: -1.255 Folding energies... MFEI: -32.692 AMFE: -0.649 GC content %: 50.383 | |
| Hvulgare_HORVU6Hr1G032050.6 HORVU6Hr1G032050.6 |
Low | No | 516 | OG0046989 | Get ORF Coding potential... Type: noncoding Potential: -0.181 Folding energies... MFEI: -27.345 AMFE: -0.593 GC content %: 46.124 |
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_HORVU6Hr1G032050.3 | RepBase (RepeatMasker) | 2014-01-31 | DNA; DNA/TcMar-Stowaway | |
| Hvulgare_HORVU6Hr1G032050.4 | SwissProt | 2021-04-01 | P20346 | 1.24e-8 |
| Hvulgare_HORVU6Hr1G032050.4 | RepBase (RepeatMasker) | 2014-01-31 | DNA; DNA/TcMar-Stowaway | |
| Hvulgare_HORVU6Hr1G032050.5 | SwissProt | 2021-04-01 | P20346 | 3.2e-9 |
| Hvulgare_HORVU6Hr1G032050.6 | RepBase (RepeatMasker) | 2014-01-31 | DNA; DNA/TcMar-Stowaway | |
| Hvulgare_HORVU6Hr1G032050.6 | SwissProt | 2021-04-01 | P20346 | 2.17e-11 |
| Hvulgare_HORVU6Hr1G032050.1 | SwissProt | 2021-04-01 | P20346 | 2.2e-7 |
| Hvulgare_HORVU6Hr1G032050.3 | Rfam | 14.6 | MIR1122 | 3.4e-11 |
| Hvulgare_HORVU6Hr1G032050.2 | SwissProt | 2021-04-01 | P20346 | 9.16e-9 |
| Hvulgare_HORVU6Hr1G032050.4 | Rfam | 14.6 | MIR1122 | 2.6e-11 |
... further results
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
