Hvulgare HORVU1Hr1G072170
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_HORVU1Hr1G072170 [ HORVU1Hr1G072170] |
chr1H | 496434857 | 496442222 | 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_HORVU1Hr1G072170.21 HORVU1Hr1G072170.21 |
Low | Yes | 835 | OG0036999 | Get ORF Coding potential... Type: noncoding Potential: -1.057 Folding energies... MFEI: -29.521 AMFE: -0.640 GC content %: 46.108 | |
| Hvulgare_HORVU1Hr1G072170.25 HORVU1Hr1G072170.25 |
Low | Yes | 2451 | OG0037000 | Get ORF Coding potential... Type: noncoding Potential: -0.098 Folding energies... MFEI: -28.764 AMFE: -0.668 GC content %: 43.044 | |
| Hvulgare_HORVU1Hr1G072170.26 HORVU1Hr1G072170.26 |
Low | No | 1181 | OG0001280 | Get ORF Coding potential... Type: noncoding Potential: -0.167 Folding energies... MFEI: -24.886 AMFE: -0.647 GC content %: 38.442 | |
| Hvulgare_HORVU1Hr1G072170.28 HORVU1Hr1G072170.28 |
Low | No | 519 | OG0037001 | Get ORF Coding potential... Type: noncoding Potential: -0.755 Folding energies... MFEI: -28.401 AMFE: -0.644 GC content %: 44.123 | |
| Hvulgare_HORVU1Hr1G072170.29 HORVU1Hr1G072170.29 |
Low | No | 578 | OG0001280 | Get ORF Coding potential... Type: noncoding Potential: -0.941 Folding energies... MFEI: -28.270 AMFE: -0.656 GC content %: 43.080 | |
| Hvulgare_HORVU1Hr1G072170.30 HORVU1Hr1G072170.30 |
Low | No | 720 | OG0001280 | Get ORF Coding potential... Type: noncoding Potential: -0.773 Folding energies... MFEI: -26.903 AMFE: -0.659 GC content %: 40.833 | |
| Hvulgare_HORVU1Hr1G072170.32 HORVU1Hr1G072170.32 |
Low | No | 779 | OG0037002 | Get ORF Coding potential... Type: noncoding Potential: -0.792 Folding energies... MFEI: -26.136 AMFE: -0.653 GC content %: 40.051 | |
| Hvulgare_HORVU1Hr1G072170.33 HORVU1Hr1G072170.33 |
Low | No | 642 | OG0001280 | Get ORF Coding potential... Type: noncoding Potential: -0.809 Folding energies... MFEI: -26.791 AMFE: -0.654 GC content %: 40.966 | |
| Hvulgare_HORVU1Hr1G072170.9 HORVU1Hr1G072170.9 |
Low | No | 1095 | OG0037003 | Get ORF Coding potential... Type: noncoding Potential: -0.009 Folding energies... MFEI: -33.890 AMFE: -0.666 GC content %: 50.868 |
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_HORVU1Hr1G072170.25 | SwissProt | 2021-04-01 | A0LIL8 | 7.35e-18 |
| Hvulgare_HORVU1Hr1G072170.25 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Hvulgare_HORVU1Hr1G072170.33 | SwissProt | 2021-04-01 | Q9D3B1 | 5.86e-9 |
| Hvulgare_HORVU1Hr1G072170.26 | SwissProt | 2021-04-01 | Q9D3B1 | 3.39e-12 |
| Hvulgare_HORVU1Hr1G072170.9 | SwissProt | 2021-04-01 | Q5RBK3 | 3.21e-15 |
| Hvulgare_HORVU1Hr1G072170.28 | SwissProt | 2021-04-01 | Q9D3B1 | 1.37e-9 |
| Hvulgare_HORVU1Hr1G072170.21 | Rfam | 14.6 | MIR1122 | 2.8e-11 |
| Hvulgare_HORVU1Hr1G072170.29 | SwissProt | 2021-04-01 | Q9D3B1 | 1.52e-8 |
| Hvulgare_HORVU1Hr1G072170.25 | Rfam | 14.6 | MIR1122 | 8.1e-11 |
| Hvulgare_HORVU1Hr1G072170.30 | SwissProt | 2021-04-01 | Q9D3B1 | 1.21e-8 |
... further results
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
