Hvulgare HORVU3Hr1G067300
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_HORVU3Hr1G067300 [ HORVU3Hr1G067300] |
chr3H | 511310492 | 511321405 | 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_HORVU3Hr1G067300.20 HORVU3Hr1G067300.20 |
Low | No | 2682 | OG0000995 | Get ORF Coding potential... Type: noncoding Potential: -0.713 Folding energies... MFEI: -28.863 AMFE: -0.645 GC content %: 44.780 | |
| Hvulgare_HORVU3Hr1G067300.28 HORVU3Hr1G067300.28 |
High | No | 676 | OG0041491 | Get ORF Coding potential... Type: noncoding Potential: -0.641 Folding energies... MFEI: -30.607 AMFE: -0.676 GC content %: 45.266 | |
| Hvulgare_HORVU3Hr1G067300.30 HORVU3Hr1G067300.30 |
Low | No | 1624 | OG0000995 | Get ORF Coding potential... Type: noncoding Potential: -0.960 Folding energies... MFEI: -26.533 AMFE: -0.624 GC content %: 42.549 | |
| Hvulgare_HORVU3Hr1G067300.31 HORVU3Hr1G067300.31 |
Low | No | 3168 | OG0000995 | Get ORF Coding potential... Type: noncoding Potential: -1.020 Folding energies... MFEI: -26.992 AMFE: -0.667 GC content %: 40.467 | |
| Hvulgare_HORVU3Hr1G067300.32 HORVU3Hr1G067300.32 |
Low | No | 1167 | OG0000995 | Get ORF Coding potential... Type: noncoding Potential: -1.000 Folding energies... MFEI: -26.607 AMFE: -0.625 GC content %: 42.588 | |
| Hvulgare_HORVU3Hr1G067300.33 HORVU3Hr1G067300.33 |
Low | No | 973 | OG0000995 | Get ORF Coding potential... Type: noncoding Potential: -0.378 Folding energies... MFEI: -25.057 AMFE: -0.610 GC content %: 41.110 | |
| Hvulgare_HORVU3Hr1G067300.4 HORVU3Hr1G067300.4 |
Low | Yes | 3691 | OG0000995 | Get ORF Coding potential... Type: noncoding Potential: -0.796 Folding energies... MFEI: -30.488 AMFE: -0.670 GC content %: 45.489 |
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_HORVU3Hr1G067300.31 | RepBase (RepeatMasker) | 2014-01-31 | DNA; LINE/L1; LTR/Copia; LTR/Gypsy | |
| Hvulgare_HORVU3Hr1G067300.32 | RepBase (RepeatMasker) | 2014-01-31 | DNA/Novosib; LINE/L1; LTR/Copia; LTR/Gypsy | |
| Hvulgare_HORVU3Hr1G067300.33 | RepBase (RepeatMasker) | 2014-01-31 | DNA/CMC-EnSpm; LTR/Copia | |
| Hvulgare_HORVU3Hr1G067300.4 | Rfam | 14.6 | MIR1122 | 8.7e-10 |
| Hvulgare_HORVU3Hr1G067300.4 | RepBase (RepeatMasker) | 2014-01-31 | LINE/L1; LTR/Copia; LTR/Gypsy | |
| Hvulgare_HORVU3Hr1G067300.20 | RepBase (RepeatMasker) | 2014-01-31 | DNA; LTR/Copia | |
| Hvulgare_HORVU3Hr1G067300.30 | RepBase (RepeatMasker) | 2014-01-31 | LINE/L1; LTR/Copia; LTR/Gypsy |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
