Gene
Gmax Glyma.20G022700
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.20G022700 Glyma.20G022700 |
Chr20 | 2354581 | 2357751 | Phytozome | Wm82.a2.v1 | Glycine_max | Coding? Yes |
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.20G022700.1 Glyma.20G022700.1 PAC:30522032 |
Low | No | 1300 | Get ORF Coding potential... Type: noncoding Potential: -0.331 Folding energies... MFEI: -23.215 AMFE: -0.612 GC content %: 37.923 | |
| Gmax_Glyma.20G022700.3 Glyma.20G022700.3 PAC:30522034 |
Low | No | 1345 | Get ORF Coding potential... Type: noncoding Potential: -0.237 Folding energies... MFEI: -23.145 AMFE: -0.616 GC content %: 37.546 | |
| Gmax_Glyma.20G022700.4 Glyma.20G022700.4 PAC:30522035 |
Low | No | 1272 | Get ORF Coding potential... Type: noncoding Potential: -0.232 Folding energies... MFEI: -22.885 AMFE: -0.608 GC content %: 37.657 | |
| Gmax_Glyma.20G022700.5 Glyma.20G022700.5 PAC:30522033 |
Low | No | 1227 | Get ORF Coding potential... Type: noncoding Potential: -0.317 Folding energies... MFEI: -23.073 AMFE: -0.606 GC content %: 38.060 | |
| Gmax_Glyma.20G022700.6 Glyma.20G022700.6 PAC:30522031 |
Low | No | 1140 | Get ORF Coding potential... Type: noncoding Potential: -0.307 Folding energies... MFEI: -23.421 AMFE: -0.592 GC content %: 39.561 | |
| Gmax_Glyma.20G022700.7 Glyma.20G022700.7 PAC:30522036 |
Low | No | 865 | Get ORF Coding potential... Type: noncoding Potential: -0.171 Folding energies... MFEI: -23.087 AMFE: -0.577 GC content %: 40.000 |
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.20G022700.6 | SwissProt | 2015-06-01 | Q5NAY4 | 4.0e-10 |
| Gmax_Glyma.20G022700.7 | SwissProt | 2015-06-01 | Q5NAY4 | 2.0e-11 |
| Gmax_Glyma.20G022700.1 | SwissProt | 2015-06-01 | Q5NAY4 | 5.0e-10 |
| Gmax_Glyma.20G022700.3 | SwissProt | 2015-06-01 | Q5NAY4 | 7.0e-11 |
| Gmax_Glyma.20G022700.4 | SwissProt | 2015-06-01 | Q5NAY4 | 6.0e-11 |
| Gmax_Glyma.20G022700.5 | SwissProt | 2015-06-01 | Q5NAY4 | 4.0e-10 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
