Gene
Ppersica Prupe.3G211700
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
|
|---|---|---|---|---|---|---|---|
| Ppersica_Prupe.3G211700 Prupe.3G211700 |
Pp03 | 21645865 | 21647655 | Phytozome | v2.1 | Prunus_persica | 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
|
|---|---|---|---|---|---|
| Ppersica_Prupe.3G211700.1 Prupe.3G211700.1 PAC:32107640 |
Low | No | 854 | Get ORF Coding potential... Type: noncoding Potential: -1.366 Folding energies... MFEI: -27.307 AMFE: -0.629 GC content %: 43.443 | |
| Ppersica_Prupe.3G211700.2 Prupe.3G211700.2 PAC:32107644 |
Low | No | 784 | Get ORF Coding potential... Type: noncoding Potential: -1.361 Folding energies... MFEI: -26.543 AMFE: -0.614 GC content %: 43.240 | |
| Ppersica_Prupe.3G211700.3 Prupe.3G211700.3 PAC:32107642 |
Low | No | 779 | Get ORF Coding potential... Type: noncoding Potential: -1.361 Folding energies... MFEI: -25.340 AMFE: -0.581 GC content %: 43.646 | |
| Ppersica_Prupe.3G211700.4 Prupe.3G211700.4 PAC:32107643 |
Low | No | 761 | Get ORF Coding potential... Type: noncoding Potential: -1.359 Folding energies... MFEI: -25.795 AMFE: -0.591 GC content %: 43.627 | |
| Ppersica_Prupe.3G211700.5 Prupe.3G211700.5 PAC:32107641 |
Low | No | 833 | Get ORF Coding potential... Type: noncoding Potential: -1.365 Folding energies... MFEI: -25.714 AMFE: -0.588 GC content %: 43.697 | |
| Ppersica_Prupe.3G211700.6 Prupe.3G211700.6 PAC:32107645 |
Low | No | 759 | Get ORF Coding potential... Type: noncoding Potential: -1.238 Folding energies... MFEI: -25.613 AMFE: -0.615 GC content %: 41.634 |
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 |
|---|---|---|---|---|
| Ppersica_Prupe.3G211700.2 | SwissProt | 2015-06-01 | Q47J85 | 5.0e-7 |
| Ppersica_Prupe.3G211700.3 | SwissProt | 2015-06-01 | C3PL27 | 2.0e-7 |
| Ppersica_Prupe.3G211700.4 | SwissProt | 2015-06-01 | Q47J85 | 4.0e-7 |
| Ppersica_Prupe.3G211700.5 | SwissProt | 2015-06-01 | C3PL27 | 3.0e-7 |
| Ppersica_Prupe.3G211700.6 | SwissProt | 2015-06-01 | C3PL27 | 2.0e-7 |
| Ppersica_Prupe.3G211700.1 | SwissProt | 2015-06-01 | C3PL27 | 3.0e-7 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
