Osativa LOC Os01g71624
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
|
|---|---|---|---|---|---|---|
| Osativa_LOC_Os01g71624 [ LOC_Os01g71624] |
Chr1 | 41495707 | 41498656 | v7 | Oryza sativa (Phytozome 13) | Coding? No |
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
|
|---|---|---|---|---|---|---|
| Osativa_LOC_Os01g71624.1 LOC_Os01g71624.1 |
Low | No | 828 | OG0004336 | Get ORF Coding potential... Type: noncoding Potential: -0.754 Folding energies... MFEI: -27.464 AMFE: -0.556 GC content %: 49.396 | |
| Osativa_LOC_Os01g71624.2 LOC_Os01g71624.2 |
Low | No | 1046 | OG0004336 | Get ORF Coding potential... Type: noncoding Potential: -0.785 Folding energies... MFEI: -27.189 AMFE: -0.561 GC content %: 48.470 | |
| Osativa_LOC_Os01g71624.3 LOC_Os01g71624.3 |
Low | No | 756 | OG0004336 | Get ORF Coding potential... Type: noncoding Potential: -0.922 Folding energies... MFEI: -26.984 AMFE: -0.530 GC content %: 50.926 | |
| Osativa_LOC_Os01g71624.4 LOC_Os01g71624.4 |
Low | No | 782 | OG0004336 | Get ORF Coding potential... Type: noncoding Potential: -0.760 Folding energies... MFEI: -26.304 AMFE: -0.534 GC content %: 49.233 | |
| Osativa_LOC_Os01g71624.5 LOC_Os01g71624.5 |
Low | No | 1829 | OG0004336 | Get ORF Coding potential... Type: noncoding Potential: -1.117 Folding energies... MFEI: -24.964 AMFE: -0.548 GC content %: 45.544 |
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 |
|---|---|---|---|---|
| Osativa_LOC_Os01g71624.3 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Gypsy | |
| Osativa_LOC_Os01g71624.4 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Gypsy | |
| Osativa_LOC_Os01g71624.5 | RepBase (RepeatMasker) | 2014-01-31 | DNA/MULE-MuDR; LTR/Gypsy | |
| Osativa_LOC_Os01g71624.1 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Gypsy | |
| Osativa_LOC_Os01g71624.2 | RepBase (RepeatMasker) | 2014-01-31 | DNA/MULE-MuDR; LTR/Gypsy |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
