Hvulgare HORVU2Hr1G023940
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_HORVU2Hr1G023940 [ HORVU2Hr1G023940] |
chr2H | 72586717 | 72589814 | 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_HORVU2Hr1G023940.41 HORVU2Hr1G023940.41 |
Low | No | 1714 | OG0037969 | Get ORF Coding potential... Type: noncoding Potential: -1.129 Folding energies... MFEI: -29.294 AMFE: -0.622 GC content %: 47.083 | |
| Hvulgare_HORVU2Hr1G023940.45 HORVU2Hr1G023940.45 |
Low | No | 1404 | OG0037970 | Get ORF Coding potential... Type: noncoding Potential: -1.275 Folding energies... MFEI: -25.855 AMFE: -0.605 GC content %: 42.735 | |
| Hvulgare_HORVU2Hr1G023940.50 HORVU2Hr1G023940.50 |
Low | No | 1501 | OG0037971 | Get ORF Coding potential... Type: noncoding Potential: -1.261 Folding energies... MFEI: -27.288 AMFE: -0.634 GC content %: 43.038 | |
| Hvulgare_HORVU2Hr1G023940.53 HORVU2Hr1G023940.53 |
Low | No | 623 | OG0037972 | Get ORF Coding potential... Type: noncoding Potential: -1.005 Folding energies... MFEI: -24.703 AMFE: -0.560 GC content %: 44.141 | |
| Hvulgare_HORVU2Hr1G023940.54 HORVU2Hr1G023940.54 |
High | No | 1197 | OG0037973 | Get ORF Coding potential... Type: noncoding Potential: -1.234 Folding energies... MFEI: -25.647 AMFE: -0.615 GC content %: 41.688 | |
| Hvulgare_HORVU2Hr1G023940.55 HORVU2Hr1G023940.55 |
High | No | 507 | OG0037974 | Get ORF Coding potential... Type: noncoding Potential: -1.072 Folding energies... MFEI: -27.239 AMFE: -0.628 GC content %: 43.393 |
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_HORVU2Hr1G023940.41 | SwissProt | 2021-04-01 | Q948R1 | 3.78e-4 |
| Hvulgare_HORVU2Hr1G023940.45 | SwissProt | 2021-04-01 | P19515 | 1.92e-7 |
| Hvulgare_HORVU2Hr1G023940.50 | SwissProt | 2021-04-01 | Q948R1 | 2.33e-4 |
| Hvulgare_HORVU2Hr1G023940.53 | SwissProt | 2021-04-01 | Q9XTR8 | 1.54e-10 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
