Gene
Gmax Glyma.01G079200
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
|
|---|---|---|---|---|---|---|---|
| Gmax_Glyma.01G079200 Glyma.01G079200 |
Chr01 | 20644345 | 20647073 | Phytozome | Wm82.a2.v1 | Glycine_max | 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
|
|---|---|---|---|---|---|
| Gmax_Glyma.01G079200.1 Glyma.01G079200.1 PAC:30543908 |
Low | No | 1318 | Get ORF Coding potential... Type: noncoding Potential: -0.833 Folding energies... MFEI: -24.894 AMFE: -0.635 GC content %: 39.226 | |
| Gmax_Glyma.01G079200.2 Glyma.01G079200.2 PAC:30543909 |
Low | No | 1559 | Get ORF Coding potential... Type: noncoding Potential: -0.904 Folding energies... MFEI: -23.637 AMFE: -0.649 GC content %: 36.434 | |
| Gmax_Glyma.01G079200.3 Glyma.01G079200.3 PAC:30543910 |
Low | No | 1712 | Get ORF Coding potential... Type: noncoding Potential: -0.920 Folding energies... MFEI: -24.381 AMFE: -0.664 GC content %: 36.741 | |
| Gmax_Glyma.01G079200.4 Glyma.01G079200.4 PAC:30543906 |
Low | No | 1165 | Get ORF Coding potential... Type: noncoding Potential: -0.807 Folding energies... MFEI: -24.180 AMFE: -0.618 GC content %: 39.142 | |
| Gmax_Glyma.01G079200.5 Glyma.01G079200.5 PAC:30543907 |
Low | No | 1302 | Get ORF Coding potential... Type: noncoding Potential: -0.831 Folding energies... MFEI: -24.416 AMFE: -0.625 GC content %: 39.094 |
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 |
|---|---|---|---|---|
| Gmax_Glyma.01G079200.5 | SwissProt | 2015-06-01 | Q7XJE6 | 5.0e-9 |
| Gmax_Glyma.01G079200.1 | SwissProt | 2015-06-01 | Q7XJE6 | 5.0e-9 |
| Gmax_Glyma.01G079200.2 | SwissProt | 2015-06-01 | Q7XJE6 | 2.0e-8 |
| Gmax_Glyma.01G079200.3 | SwissProt | 2015-06-01 | Q7XJE6 | 2.0e-8 |
| Gmax_Glyma.01G079200.4 | SwissProt | 2015-06-01 | Q7XJE6 | 4.0e-9 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
