Gene
Gmax Glyma.19G136600
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.19G136600 Glyma.19G136600 |
Chr19 | 39787375 | 39790312 | 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.19G136600.11 Glyma.19G136600.11 PAC:30512704 |
High | No | 537 | Get ORF Coding potential... Type: noncoding Potential: -0.385 Folding energies... MFEI: -26.741 AMFE: -0.579 GC content %: 46.182 | |
| Gmax_Glyma.19G136600.2 Glyma.19G136600.2 PAC:30512701 |
Low | No | 1691 | Get ORF Coding potential... Type: noncoding Potential: -0.633 Folding energies... MFEI: -29.633 AMFE: -0.736 GC content %: 40.272 | |
| Gmax_Glyma.19G136600.3 Glyma.19G136600.3 PAC:30512702 |
Low | No | 1524 | Get ORF Coding potential... Type: noncoding Potential: -0.245 Folding energies... MFEI: -28.615 AMFE: -0.717 GC content %: 39.895 | |
| Gmax_Glyma.19G136600.5 Glyma.19G136600.5 PAC:30512698 |
High | No | 915 | Get ORF Coding potential... Type: noncoding Potential: -0.318 Folding energies... MFEI: -28.623 AMFE: -0.682 GC content %: 41.967 | |
| Gmax_Glyma.19G136600.6 Glyma.19G136600.6 PAC:30512699 |
High | No | 1082 | Get ORF Coding potential... Type: noncoding Potential: -0.649 Folding energies... MFEI: -30.203 AMFE: -0.715 GC content %: 42.237 | |
| Gmax_Glyma.19G136600.7 Glyma.19G136600.7 PAC:30512700 |
High | No | 861 | Get ORF Coding potential... Type: noncoding Potential: -0.269 Folding energies... MFEI: -27.375 AMFE: -0.653 GC content %: 41.928 | |
| Gmax_Glyma.19G136600.8 Glyma.19G136600.8 PAC:30512703 |
Low | No | 1446 | Get ORF Coding potential... Type: noncoding Potential: -0.230 Folding energies... MFEI: -28.921 AMFE: -0.722 GC content %: 40.041 |
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.19G136600.2 | RepBase (RepeatMasker) | 2014-01-31 | METMITE | |
| Gmax_Glyma.19G136600.3 | RepBase (RepeatMasker) | 2014-01-31 | METMITE | |
| Gmax_Glyma.19G136600.8 | RepBase (RepeatMasker) | 2014-01-31 | METMITE |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
