Sbicolor Sobic.004G294900
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
|
|---|---|---|---|---|---|---|
| Sbicolor_Sobic.004G294900 [ Sobic.004G294900] |
Chr04 | 63483991 | 63486763 | v3.1.1 | Sorghum bicolor (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
|
|---|---|---|---|---|---|---|
| Sbicolor_Sobic.004G294900.1 Sobic.004G294900.1 |
Low | No | 1815 | OG0001225 | Get ORF Coding potential... Type: noncoding Potential: -1.063 Folding energies... MFEI: -34.116 AMFE: -0.673 GC content %: 50.689 | |
| Sbicolor_Sobic.004G294900.2 Sobic.004G294900.2 |
Low | No | 1176 | OG0001225 | Get ORF Coding potential... Type: noncoding Potential: -0.986 Folding energies... MFEI: -38.639 AMFE: -0.667 GC content %: 57.908 | |
| Sbicolor_Sobic.004G294900.3 Sobic.004G294900.3 |
Low | No | 979 | OG0001225 | Get ORF Coding potential... Type: noncoding Potential: -0.945 Folding energies... MFEI: -36.639 AMFE: -0.641 GC content %: 57.201 | |
| Sbicolor_Sobic.004G294900.4 Sobic.004G294900.4 |
Low | No | 1370 | OG0001225 | Get ORF Coding potential... Type: noncoding Potential: -1.016 Folding energies... MFEI: -33.409 AMFE: -0.648 GC content %: 51.533 | |
| Sbicolor_Sobic.004G294900.5 Sobic.004G294900.5 |
High | No | 909 | OG0001225 | Get ORF Coding potential... Type: noncoding Potential: -0.908 Folding energies... MFEI: -37.811 AMFE: -0.651 GC content %: 58.086 | |
| Sbicolor_Sobic.004G294900.6 Sobic.004G294900.6 |
Low | No | 1336 | OG0001225 | Get ORF Coding potential... Type: noncoding Potential: -0.922 Folding energies... MFEI: -33.900 AMFE: -0.659 GC content %: 51.422 | |
| Sbicolor_Sobic.004G294900.7 Sobic.004G294900.7 |
High | No | 943 | OG0001225 | Get ORF Coding potential... Type: noncoding Potential: -0.813 Folding energies... MFEI: -36.808 AMFE: -0.642 GC content %: 57.370 | |
| Sbicolor_Sobic.004G294900.8 Sobic.004G294900.8 |
Low | No | 1779 | OG0001225 | Get ORF Coding potential... Type: noncoding Potential: -0.969 Folding energies... MFEI: -34.115 AMFE: -0.674 GC content %: 50.646 |
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.004G294900.4 | SwissProt | 2021-04-01 | Q6NNL9 | 5.44e-4 |
| Sbicolor_Sobic.004G294900.1 | RepBase (RepeatMasker) | 2014-01-31 | DNA/PIF-Harbinger | |
| Sbicolor_Sobic.004G294900.4 | RepBase (RepeatMasker) | 2014-01-31 | DNA/PIF-Harbinger | |
| Sbicolor_Sobic.004G294900.1 | SwissProt | 2021-04-01 | Q6NNL9 | 5.97e-4 |
| Sbicolor_Sobic.004G294900.6 | RepBase (RepeatMasker) | 2014-01-31 | DNA/PIF-Harbinger | |
| Sbicolor_Sobic.004G294900.2 | SwissProt | 2021-04-01 | Q6NNL9 | 3.71e-4 |
| Sbicolor_Sobic.004G294900.8 | RepBase (RepeatMasker) | 2014-01-31 | DNA/PIF-Harbinger | |
| Sbicolor_Sobic.004G294900.3 | SwissProt | 2021-04-01 | Q6NNL9 | 3.73e-4 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
