Gene
Sbicolor Sobic.010G027100
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.010G027100 Sobic.010G027100 |
Chr10 | 2178007 | 2183555 | 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.010G027100.10 Sobic.010G027100.10 PAC:32727006 |
High | No | 2184 | Get ORF Coding potential... Type: noncoding Potential: -0.105 Folding energies... MFEI: -29.799 AMFE: -0.681 GC content %: 43.773 | |
| Sbicolor_Sobic.010G027100.11 Sobic.010G027100.11 PAC:32727007 |
Low | No | 3072 | Get ORF Coding potential... Type: noncoding Potential: -0.134 Folding energies... MFEI: -29.229 AMFE: -0.678 GC content %: 43.099 | |
| Sbicolor_Sobic.010G027100.12 Sobic.010G027100.12 PAC:32727008 |
High | No | 2209 | Get ORF Coding potential... Type: noncoding Potential: -0.170 Folding energies... MFEI: -29.004 AMFE: -0.662 GC content %: 43.821 | |
| Sbicolor_Sobic.010G027100.13 Sobic.010G027100.13 PAC:32727009 |
High | No | 1688 | Get ORF Coding potential... Type: noncoding Potential: -0.110 Folding energies... MFEI: -29.982 AMFE: -0.675 GC content %: 44.431 | |
| Sbicolor_Sobic.010G027100.14 Sobic.010G027100.14 PAC:32727010 |
High | No | 1806 | Get ORF Coding potential... Type: noncoding Potential: -0.085 Folding energies... MFEI: -29.839 AMFE: -0.675 GC content %: 44.186 | |
| Sbicolor_Sobic.010G027100.15 Sobic.010G027100.15 PAC:32727011 |
High | No | 2322 | Get ORF Coding potential... Type: noncoding Potential: -0.097 Folding energies... MFEI: -29.462 AMFE: -0.673 GC content %: 43.798 | |
| Sbicolor_Sobic.010G027100.16 Sobic.010G027100.16 PAC:32727012 |
High | No | 2690 | Get ORF Coding potential... Type: noncoding Potential: -0.123 Folding energies... MFEI: -29.134 AMFE: -0.672 GC content %: 43.383 | |
| Sbicolor_Sobic.010G027100.17 Sobic.010G027100.17 PAC:32727013 |
Low | No | 3525 | Get ORF Coding potential... Type: noncoding Potential: -0.144 Folding energies... MFEI: -28.930 AMFE: -0.676 GC content %: 42.809 | |
| Sbicolor_Sobic.010G027100.8 Sobic.010G027100.8 PAC:32727004 |
High | No | 2312 | Get ORF Coding potential... Type: noncoding Potential: -0.110 Folding energies... MFEI: -29.001 AMFE: -0.665 GC content %: 43.642 | |
| Sbicolor_Sobic.010G027100.9 Sobic.010G027100.9 PAC:32727005 |
High | No | 2775 | Get ORF Coding potential... Type: noncoding Potential: -0.113 Folding energies... MFEI: -29.088 AMFE: -0.672 GC content %: 43.315 |
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.010G027100.11 | RepBase (RepeatMasker) | 2014-01-31 | EnSpm-N39_SBi | |
| Sbicolor_Sobic.010G027100.17 | RepBase (RepeatMasker) | 2014-01-31 | EnSpm-N39_SBi |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
