Gene
Ppersica Prupe.7G195300
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.7G195300 Prupe.7G195300 |
Pp07 | 18510106 | 18514270 | 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.7G195300.1 Prupe.7G195300.1 PAC:32102575 |
Low | No | 2159 | Get ORF Coding potential... Type: noncoding Potential: -0.800 Folding energies... MFEI: -24.257 AMFE: -0.594 GC content %: 40.806 | |
| Ppersica_Prupe.7G195300.2 Prupe.7G195300.2 PAC:32102576 |
Low | No | 1697 | Get ORF Coding potential... Type: noncoding Potential: -0.776 Folding energies... MFEI: -23.895 AMFE: -0.570 GC content %: 41.956 | |
| Ppersica_Prupe.7G195300.3 Prupe.7G195300.3 PAC:32102577 |
Low | No | 1857 | Get ORF Coding potential... Type: noncoding Potential: -0.786 Folding energies... MFEI: -23.667 AMFE: -0.576 GC content %: 41.088 | |
| Ppersica_Prupe.7G195300.4 Prupe.7G195300.4 PAC:32102578 |
Low | No | 1999 | Get ORF Coding potential... Type: noncoding Potential: -0.793 Folding energies... MFEI: -24.472 AMFE: -0.589 GC content %: 41.521 | |
| Ppersica_Prupe.7G195300.5 Prupe.7G195300.5 PAC:32102579 |
Low | No | 1982 | Get ORF Coding potential... Type: noncoding Potential: -0.792 Folding energies... MFEI: -24.511 AMFE: -0.590 GC content %: 41.524 | |
| Ppersica_Prupe.7G195300.6 Prupe.7G195300.6 PAC:32102580 |
Low | No | 1516 | Get ORF Coding potential... Type: noncoding Potential: -0.763 Folding energies... MFEI: -23.298 AMFE: -0.554 GC content %: 42.018 | |
| Ppersica_Prupe.7G195300.7 Prupe.7G195300.7 PAC:32102581 |
Low | No | 1680 | Get ORF Coding potential... Type: noncoding Potential: -0.775 Folding energies... MFEI: -23.905 AMFE: -0.570 GC content %: 41.964 | |
| Ppersica_Prupe.7G195300.8 Prupe.7G195300.8 PAC:32102582 |
Low | No | 1533 | Get ORF Coding potential... Type: noncoding Potential: -0.764 Folding energies... MFEI: -23.301 AMFE: -0.553 GC content %: 42.140 |
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.7G195300.7 | SwissProt | 2015-06-01 | P13869 | 2.0e-20 |
| Ppersica_Prupe.7G195300.2 | SwissProt | 2015-06-01 | P13869 | 3.0e-20 |
| Ppersica_Prupe.7G195300.8 | SwissProt | 2015-06-01 | P13869 | 2.0e-20 |
| Ppersica_Prupe.7G195300.3 | SwissProt | 2015-06-01 | P13869 | 3.0e-20 |
| Ppersica_Prupe.7G195300.1 | RepBase (RepeatMasker) | 2014-01-31 | Copia-75_Mad-LTR | |
| Ppersica_Prupe.7G195300.4 | SwissProt | 2015-06-01 | P13869 | 4.0e-20 |
| Ppersica_Prupe.7G195300.4 | RepBase (RepeatMasker) | 2014-01-31 | Copia-75_Mad-LTR | |
| Ppersica_Prupe.7G195300.5 | SwissProt | 2015-06-01 | P13869 | 4.0e-20 |
| Ppersica_Prupe.7G195300.5 | RepBase (RepeatMasker) | 2014-01-31 | Copia-75_Mad-LTR | |
| Ppersica_Prupe.7G195300.6 | SwissProt | 2015-06-01 | P13869 | 2.0e-20 |
... further results
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
