Gene
Ppersica Prupe.7G265800
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.7G265800 Prupe.7G265800 |
Pp07 | 21923460 | 21926879 | 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.7G265800.1 Prupe.7G265800.1 PAC:32103782 |
Low | No | 1666 | Get ORF Coding potential... Type: noncoding Potential: -0.804 Folding energies... MFEI: -27.089 AMFE: -0.706 GC content %: 38.355 | |
| Ppersica_Prupe.7G265800.2 Prupe.7G265800.2 PAC:32103784 |
Low | No | 897 | Get ORF Coding potential... Type: noncoding Potential: -0.674 Folding energies... MFEI: -26.109 AMFE: -0.621 GC content %: 42.029 | |
| Ppersica_Prupe.7G265800.3 Prupe.7G265800.3 PAC:32103785 |
Low | No | 911 | Get ORF Coding potential... Type: noncoding Potential: -0.678 Folding energies... MFEI: -27.102 AMFE: -0.643 GC content %: 42.151 | |
| Ppersica_Prupe.7G265800.4 Prupe.7G265800.4 PAC:32103790 |
Low | No | 911 | Get ORF Coding potential... Type: noncoding Potential: -0.968 Folding energies... MFEI: -25.499 AMFE: -0.611 GC content %: 41.712 | |
| Ppersica_Prupe.7G265800.5 Prupe.7G265800.5 PAC:32103786 |
Low | No | 645 | Get ORF Coding potential... Type: noncoding Potential: -0.584 Folding energies... MFEI: -26.961 AMFE: -0.651 GC content %: 41.395 | |
| Ppersica_Prupe.7G265800.6 Prupe.7G265800.6 PAC:32103783 |
Low | No | 1006 | Get ORF Coding potential... Type: noncoding Potential: -0.702 Folding energies... MFEI: -28.171 AMFE: -0.678 GC content %: 41.551 | |
| Ppersica_Prupe.7G265800.7 Prupe.7G265800.7 PAC:32103789 |
Low | No | 1020 | Get ORF Coding potential... Type: noncoding Potential: -0.980 Folding energies... MFEI: -27.627 AMFE: -0.669 GC content %: 41.275 | |
| Ppersica_Prupe.7G265800.8 Prupe.7G265800.8 PAC:32103788 |
Low | No | 1680 | Get ORF Coding potential... Type: noncoding Potential: -1.022 Folding energies... MFEI: -26.845 AMFE: -0.702 GC content %: 38.214 | |
| Ppersica_Prupe.7G265800.9 Prupe.7G265800.9 PAC:32103787 |
Low | No | 707 | Get ORF Coding potential... Type: noncoding Potential: -0.849 Folding energies... MFEI: -26.563 AMFE: -0.632 GC content %: 42.008 |
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.7G265800.1 | SwissProt | 2015-06-01 | P16709 | 3.0e-6 |
| Ppersica_Prupe.7G265800.7 | RepBase (RepeatMasker) | 2014-01-31 | HAT-1_Mad | |
| Ppersica_Prupe.7G265800.7 | SwissProt | 2015-06-01 | P16709 | 1.0e-5 |
| Ppersica_Prupe.7G265800.2 | SwissProt | 2015-06-01 | P16709 | 1.0e-6 |
| Ppersica_Prupe.7G265800.8 | RepBase (RepeatMasker) | 2014-01-31 | HAT-1_Mad | |
| Ppersica_Prupe.7G265800.8 | SwissProt | 2015-06-01 | P16709 | 3.0e-5 |
| Ppersica_Prupe.7G265800.3 | SwissProt | 2015-06-01 | P16709 | 1.0e-6 |
| Ppersica_Prupe.7G265800.9 | SwissProt | 2015-06-01 | P16709 | 4.0e-7 |
| Ppersica_Prupe.7G265800.4 | SwissProt | 2015-06-01 | P16709 | 1.0e-5 |
| Ppersica_Prupe.7G265800.1 | RepBase (RepeatMasker) | 2014-01-31 | HAT-1_Mad |
... further results
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
