Hvulgare HORVU7Hr1G058250
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_HORVU7Hr1G058250 [ HORVU7Hr1G058250] |
chr7H | 257310131 | 257536112 | 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_HORVU7Hr1G058250.1 HORVU7Hr1G058250.1 |
Low | No | 752 | OG0049296 | Get ORF Coding potential... Type: noncoding Potential: -0.896 Folding energies... MFEI: -32.939 AMFE: -0.673 GC content %: 48.936 | |
| Hvulgare_HORVU7Hr1G058250.2 HORVU7Hr1G058250.2 |
Low | No | 824 | OG0049297 | Get ORF Coding potential... Type: noncoding Potential: -1.241 Folding energies... MFEI: -29.066 AMFE: -0.620 GC content %: 46.845 | |
| Hvulgare_HORVU7Hr1G058250.3 HORVU7Hr1G058250.3 |
Low | No | 1355 | OG0049298 | Get ORF Coding potential... Type: noncoding Potential: -1.007 Folding energies... MFEI: -33.365 AMFE: -0.616 GC content %: 54.170 | |
| Hvulgare_HORVU7Hr1G058250.4 HORVU7Hr1G058250.4 |
High | No | 925 | OG0049299 | Get ORF Coding potential... Type: noncoding Potential: -1.092 Folding energies... MFEI: -27.777 AMFE: -0.583 GC content %: 47.676 | |
| Hvulgare_HORVU7Hr1G058250.5 HORVU7Hr1G058250.5 |
Low | Yes | 1708 | OG0049300 | Get ORF Coding potential... Type: noncoding Potential: -1.159 Folding energies... MFEI: -28.650 AMFE: -0.687 GC content %: 41.686 | |
| Hvulgare_HORVU7Hr1G058250.50 HORVU7Hr1G058250.50 |
Low | No | 2221 | OG0049301 | Get ORF Coding potential... Type: noncoding Potential: -1.188 Folding energies... MFEI: -30.873 AMFE: -0.668 GC content %: 46.195 | |
| Hvulgare_HORVU7Hr1G058250.6 HORVU7Hr1G058250.6 |
High | No | 499 | OG0049302 | Get ORF Coding potential... Type: noncoding Potential: -1.339 Folding energies... MFEI: -29.499 AMFE: -0.577 GC content %: 51.102 |
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_HORVU7Hr1G058250.5 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway | |
| Hvulgare_HORVU7Hr1G058250.50 | RepBase (RepeatMasker) | 2014-01-31 | DNA/TcMar-Stowaway; LINE/R2; LTR/Copia | |
| Hvulgare_HORVU7Hr1G058250.5 | Rfam | 14.6 | MIR1122 | 8.9e-9 |
| Hvulgare_HORVU7Hr1G058250.1 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Copia | |
| Hvulgare_HORVU7Hr1G058250.2 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Copia | |
| Hvulgare_HORVU7Hr1G058250.3 | RepBase (RepeatMasker) | 2014-01-31 | LTR |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
