Hvulgare HORVU3Hr1G041600
From GreeNC
Gene information
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_HORVU3Hr1G041600 [ HORVU3Hr1G041600] |
chr3H | 260285664 | 260288757 | r1 | Hordeum vulgare (Phytozome 13) | Coding? No |
Transcript features
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_HORVU3Hr1G041600.1 HORVU3Hr1G041600.1 |
Low | Yes | 1507 | OG0040981 | Get ORF Coding potential... Type: noncoding Potential: -1.186 Folding energies... MFEI: -21.115 AMFE: -0.611 GC content %: 34.572 | |
| Hvulgare_HORVU3Hr1G041600.10 HORVU3Hr1G041600.10 |
Low | Yes | 1142 | OG0012545 | Get ORF Coding potential... Type: noncoding Potential: -1.198 Folding energies... MFEI: -25.827 AMFE: -0.621 GC content %: 41.594 | |
| Hvulgare_HORVU3Hr1G041600.11 HORVU3Hr1G041600.11 |
Low | Yes | 1614 | OG0040982 | Get ORF Coding potential... Type: noncoding Potential: -1.252 Folding energies... MFEI: -24.232 AMFE: -0.602 GC content %: 40.273 | |
| Hvulgare_HORVU3Hr1G041600.12 HORVU3Hr1G041600.12 |
Low | Yes | 1383 | OG0040983 | Get ORF Coding potential... Type: noncoding Potential: -1.256 Folding energies... MFEI: -24.638 AMFE: -0.613 GC content %: 40.202 | |
| Hvulgare_HORVU3Hr1G041600.13 HORVU3Hr1G041600.13 |
High | No | 794 | OG0040984 | Get ORF Coding potential... Type: noncoding Potential: -1.350 Folding energies... MFEI: -25.647 AMFE: -0.580 GC content %: 44.207 | |
| Hvulgare_HORVU3Hr1G041600.14 HORVU3Hr1G041600.14 |
Low | Yes | 1353 | OG0012546 | Get ORF Coding potential... Type: noncoding Potential: -1.216 Folding energies... MFEI: -24.681 AMFE: -0.613 GC content %: 40.281 | |
| Hvulgare_HORVU3Hr1G041600.15 HORVU3Hr1G041600.15 |
Low | Yes | 1618 | OG0040985 | Get ORF Coding potential... Type: noncoding Potential: -1.232 Folding energies... MFEI: -23.770 AMFE: -0.578 GC content %: 41.100 | |
| Hvulgare_HORVU3Hr1G041600.16 HORVU3Hr1G041600.16 |
High | No | 798 | OG0040986 | Get ORF Coding potential... Type: noncoding Potential: -1.299 Folding energies... MFEI: -24.128 AMFE: -0.545 GC content %: 44.236 | |
| Hvulgare_HORVU3Hr1G041600.17 HORVU3Hr1G041600.17 |
High | No | 877 | OG0012547 | Get ORF Coding potential... Type: noncoding Potential: -1.192 Folding energies... MFEI: -20.798 AMFE: -0.509 GC content %: 40.821 | |
| Hvulgare_HORVU3Hr1G041600.18 HORVU3Hr1G041600.18 |
Low | No | 1470 | OG0040987 | Get ORF Coding potential... Type: noncoding Potential: -1.348 Folding energies... MFEI: -25.340 AMFE: -0.617 GC content %: 41.088 | |
| Hvulgare_HORVU3Hr1G041600.19 HORVU3Hr1G041600.19 |
Low | Yes | 1627 | OG0040988 | Get ORF Coding potential... Type: noncoding Potential: -1.193 Folding energies... MFEI: -25.722 AMFE: -0.667 GC content %: 38.537 | |
| Hvulgare_HORVU3Hr1G041600.2 HORVU3Hr1G041600.2 |
Low | Yes | 1479 | OG0012546 | Get ORF Coding potential... Type: noncoding Potential: -1.224 Folding energies... MFEI: -24.485 AMFE: -0.613 GC content %: 39.959 | |
| Hvulgare_HORVU3Hr1G041600.20 HORVU3Hr1G041600.20 |
Low | Yes | 671 | OG0040989 | Get ORF Coding potential... Type: noncoding Potential: -1.121 Folding energies... MFEI: -25.529 AMFE: -0.669 GC content %: 38.152 | |
| Hvulgare_HORVU3Hr1G041600.21 HORVU3Hr1G041600.21 |
Low | Yes | 1026 | OG0012545 | Get ORF Coding potential... Type: noncoding Potential: -1.185 Folding energies... MFEI: -24.658 AMFE: -0.584 GC content %: 42.203 | |
| Hvulgare_HORVU3Hr1G041600.22 HORVU3Hr1G041600.22 |
High | No | 860 | OG0040990 | Get ORF Coding potential... Type: noncoding Potential: -1.160 Folding energies... MFEI: -29.209 AMFE: -0.663 GC content %: 44.070 | |
| Hvulgare_HORVU3Hr1G041600.23 HORVU3Hr1G041600.23 |
High | No | 665 | OG0040991 | Get ORF Coding potential... Type: noncoding Potential: -1.329 Folding energies... MFEI: -28.632 AMFE: -0.641 GC content %: 44.662 | |
| Hvulgare_HORVU3Hr1G041600.24 HORVU3Hr1G041600.24 |
Low | No | 1448 | OG0040992 | Get ORF Coding potential... Type: noncoding Potential: -1.272 Folding energies... MFEI: -24.026 AMFE: -0.550 GC content %: 43.646 | |
| Hvulgare_HORVU3Hr1G041600.3 HORVU3Hr1G041600.3 |
Low | Yes | 1073 | OG0012548 | Get ORF Coding potential... Type: noncoding Potential: -1.191 Folding energies... MFEI: -22.296 AMFE: -0.617 GC content %: 36.160 | |
| Hvulgare_HORVU3Hr1G041600.4 HORVU3Hr1G041600.4 |
Low | No | 1033 | OG0040993 | Get ORF Coding potential... Type: noncoding Potential: -1.298 Folding energies... MFEI: -25.053 AMFE: -0.571 GC content %: 43.853 | |
| Hvulgare_HORVU3Hr1G041600.5 HORVU3Hr1G041600.5 |
High | No | 932 | OG0040994 | Get ORF Coding potential... Type: noncoding Potential: -1.361 Folding energies... MFEI: -25.837 AMFE: -0.584 GC content %: 44.206 | |
| Hvulgare_HORVU3Hr1G041600.6 HORVU3Hr1G041600.6 |
High | No | 1056 | OG0012547 | Get ORF Coding potential... Type: noncoding Potential: -1.219 Folding energies... MFEI: -23.924 AMFE: -0.555 GC content %: 43.087 | |
| Hvulgare_HORVU3Hr1G041600.7 HORVU3Hr1G041600.7 |
Low | Yes | 1287 | OG0012548 | Get ORF Coding potential... Type: noncoding Potential: -1.211 Folding energies... MFEI: -24.479 AMFE: -0.617 GC content %: 39.705 | |
| Hvulgare_HORVU3Hr1G041600.8 HORVU3Hr1G041600.8 |
Low | Yes | 1260 | OG0040995 | Get ORF Coding potential... Type: noncoding Potential: -1.209 Folding energies... MFEI: -25.654 AMFE: -0.613 GC content %: 41.825 | |
| Hvulgare_HORVU3Hr1G041600.9 HORVU3Hr1G041600.9 |
Low | No | 987 | OG0040996 | Get ORF Coding potential... Type: noncoding Potential: -1.291 Folding energies... MFEI: -25.212 AMFE: -0.567 GC content %: 44.478 |
Matches to external databases
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_HORVU3Hr1G041600.19 | Rfam | 14.6 | mir-282 | 2.7e-4 |
| Hvulgare_HORVU3Hr1G041600.10 | Rfam | 14.6 | mir-282 | 1.9e-4 |
| Hvulgare_HORVU3Hr1G041600.4 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Gypsy | |
| Hvulgare_HORVU3Hr1G041600.8 | Rfam | 14.6 | mir-282 | 2.1e-4 |
| Hvulgare_HORVU3Hr1G041600.2 | Rfam | 14.6 | mir-282 | 2.5e-4 |
| Hvulgare_HORVU3Hr1G041600.11 | Rfam | 14.6 | mir-282 | 2.7e-4 |
| Hvulgare_HORVU3Hr1G041600.8 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Gypsy | |
| Hvulgare_HORVU3Hr1G041600.10 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Gypsy | |
| Hvulgare_HORVU3Hr1G041600.20 | Rfam | 14.6 | mir-282 | 1.1e-4 |
| Hvulgare_HORVU3Hr1G041600.12 | Rfam | 14.6 | mir-282 | 2.3e-4 |
... further results
Gene models
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
