Gene
Gmax Glyma.01G015700
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.01G015700 Glyma.01G015700 |
Chr01 | 1528792 | 1532355 | 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.01G015700.1 Glyma.01G015700.1 PAC:30544705 |
Low | No | 2796 | Get ORF Coding potential... Type: noncoding Potential: -1.003 Folding energies... MFEI: -25.962 AMFE: -0.701 GC content %: 37.017 | |
| Gmax_Glyma.01G015700.2 Glyma.01G015700.2 PAC:30544709 |
High | No | 1002 | Get ORF Coding potential... Type: noncoding Potential: -0.821 Folding energies... MFEI: -26.557 AMFE: -0.660 GC content %: 40.220 | |
| Gmax_Glyma.01G015700.3 Glyma.01G015700.3 PAC:30544710 |
High | No | 907 | Get ORF Coding potential... Type: noncoding Potential: -0.795 Folding energies... MFEI: -26.626 AMFE: -0.653 GC content %: 40.794 | |
| Gmax_Glyma.01G015700.4 Glyma.01G015700.4 PAC:30544706 |
Low | No | 1315 | Get ORF Coding potential... Type: noncoding Potential: -0.880 Folding energies... MFEI: -26.578 AMFE: -0.675 GC content %: 39.392 | |
| Gmax_Glyma.01G015700.5 Glyma.01G015700.5 PAC:30544707 |
High | No | 836 | Get ORF Coding potential... Type: noncoding Potential: -0.740 Folding energies... MFEI: -26.053 AMFE: -0.628 GC content %: 41.507 | |
| Gmax_Glyma.01G015700.6 Glyma.01G015700.6 PAC:30544708 |
High | No | 930 | Get ORF Coding potential... Type: noncoding Potential: -0.768 Folding energies... MFEI: -25.914 AMFE: -0.634 GC content %: 40.860 | |
| Gmax_Glyma.01G015700.7 Glyma.01G015700.7 PAC:30544704 |
Low | No | 1221 | Get ORF Coding potential... Type: noncoding Potential: -0.863 Folding energies... MFEI: -26.601 AMFE: -0.670 GC content %: 39.722 |
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.01G015700.1 | RepBase (RepeatMasker) | 2014-01-31 | SINE2-1_PD | |
| Gmax_Glyma.01G015700.4 | RepBase (RepeatMasker) | 2014-01-31 | SINE2-1_PD | |
| Gmax_Glyma.01G015700.7 | RepBase (RepeatMasker) | 2014-01-31 | SINE2-1_PD |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
