Gene
Ppatens Pp3c6 6800
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
|
|---|---|---|---|---|---|---|---|
| Ppatens_Pp3c6_6800 Pp3c6_6800 |
Chr06 | 4070126 | 4072244 | Phytozome | v3.3 | Physcomitrella_patens | 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
|
|---|---|---|---|---|---|
| Ppatens_Pp3c6_6800V3.1 Pp3c6_6800V3.1 PAC:32978346 |
Low | No | 475 | Get ORF Coding potential... Type: noncoding Potential: -1.128 Folding energies... MFEI: -26.316 AMFE: -0.581 GC content %: 45.263 | |
| Ppatens_Pp3c6_6800V3.2 Pp3c6_6800V3.2 PAC:32978347 |
Low | No | 752 | Get ORF Coding potential... Type: noncoding Potential: -1.230 Folding energies... MFEI: -27.766 AMFE: -0.631 GC content %: 44.016 |
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 |
|---|---|---|---|---|
| Ppatens_Pp3c6_6800V3.1 | SwissProt | 2015-06-01 | Q9XIA7 | 2.0e-6 |
| Ppatens_Pp3c6_6800V3.2 | SwissProt | 2015-06-01 | Q9XIA7 | 8.0e-6 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
