Gene
Sbicolor Sobic.003G298800
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 | Source | Assembly | Species | Details
|
|---|---|---|---|---|---|---|---|
| Sbicolor_Sobic.003G298800 Sobic.003G298800 |
Chr03 | 63007971 | 63012150 | Phytozome | v3.1 | Sorghum_bicolor | 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 | Sequence | Details
|
|---|---|---|---|---|---|
| Sbicolor_Sobic.003G298800.1 Sobic.003G298800.1 PAC:32728680 |
Low | No | 2504 | Get ORF Coding potential... Type: noncoding Potential: -1.050 Folding energies... MFEI: -28.215 AMFE: -0.681 GC content %: 41.414 | |
| Sbicolor_Sobic.003G298800.10 Sobic.003G298800.10 PAC:32728679 |
High | No | 1007 | Get ORF Coding potential... Type: noncoding Potential: -0.930 Folding energies... MFEI: -30.566 AMFE: -0.623 GC content %: 49.057 | |
| Sbicolor_Sobic.003G298800.11 Sobic.003G298800.11 PAC:32728685 |
Low | Yes | 1359 | Get ORF Coding potential... Type: noncoding Potential: -0.988 Folding energies... MFEI: -33.297 AMFE: -0.673 GC content %: 49.448 | |
| Sbicolor_Sobic.003G298800.12 Sobic.003G298800.12 PAC:32728683 |
Low | Yes | 1109 | Get ORF Coding potential... Type: noncoding Potential: -0.842 Folding energies... MFEI: -33.850 AMFE: -0.670 GC content %: 50.496 | |
| Sbicolor_Sobic.003G298800.13 Sobic.003G298800.13 PAC:32728684 |
Low | No | 2210 | Get ORF Coding potential... Type: noncoding Potential: -0.928 Folding energies... MFEI: -28.258 AMFE: -0.683 GC content %: 41.357 | |
| Sbicolor_Sobic.003G298800.2 Sobic.003G298800.2 PAC:32728673 |
Low | No | 2283 | Get ORF Coding potential... Type: noncoding Potential: -1.042 Folding energies... MFEI: -28.406 AMFE: -0.684 GC content %: 41.524 | |
| Sbicolor_Sobic.003G298800.3 Sobic.003G298800.3 PAC:32728674 |
Low | Yes | 1432 | Get ORF Coding potential... Type: noncoding Potential: -0.994 Folding energies... MFEI: -33.142 AMFE: -0.672 GC content %: 49.302 | |
| Sbicolor_Sobic.003G298800.4 Sobic.003G298800.4 PAC:32728675 |
Low | No | 1916 | Get ORF Coding potential... Type: noncoding Potential: -1.026 Folding energies... MFEI: -26.759 AMFE: -0.643 GC content %: 41.597 | |
| Sbicolor_Sobic.003G298800.5 Sobic.003G298800.5 PAC:32728676 |
Low | Yes | 1182 | Get ORF Coding potential... Type: noncoding Potential: -0.978 Folding energies... MFEI: -33.790 AMFE: -0.672 GC content %: 50.254 | |
| Sbicolor_Sobic.003G298800.6 Sobic.003G298800.6 PAC:32728677 |
Low | Yes | 1296 | Get ORF Coding potential... Type: noncoding Potential: -0.989 Folding energies... MFEI: -33.164 AMFE: -0.671 GC content %: 49.460 | |
| Sbicolor_Sobic.003G298800.7 Sobic.003G298800.7 PAC:32728681 |
Low | No | 2222 | Get ORF Coding potential... Type: noncoding Potential: -1.059 Folding energies... MFEI: -28.339 AMFE: -0.686 GC content %: 41.314 | |
| Sbicolor_Sobic.003G298800.8 Sobic.003G298800.8 PAC:32728682 |
Low | Yes | 1141 | Get ORF Coding potential... Type: noncoding Potential: -0.974 Folding energies... MFEI: -34.032 AMFE: -0.676 GC content %: 50.307 | |
| Sbicolor_Sobic.003G298800.9 Sobic.003G298800.9 PAC:32728678 |
Low | Yes | 1378 | Get ORF Coding potential... Type: noncoding Potential: -0.984 Folding energies... MFEI: -33.687 AMFE: -0.685 GC content %: 49.202 |
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 |
|---|---|---|---|---|
| Sbicolor_Sobic.003G298800.1 | RepBase (RepeatMasker) | 2014-01-31 | MuDR-N7_SBi | |
| Sbicolor_Sobic.003G298800.13 | RepBase (RepeatMasker) | 2014-01-31 | MuDR-N7_SBi | |
| Sbicolor_Sobic.003G298800.2 | RepBase (RepeatMasker) | 2014-01-31 | MuDR-N7_SBi | |
| Sbicolor_Sobic.003G298800.4 | RepBase (RepeatMasker) | 2014-01-31 | MuDR-N7_SBi | |
| Sbicolor_Sobic.003G298800.7 | RepBase (RepeatMasker) | 2014-01-31 | MuDR-N7_SBi |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
