Kfedtschenkoi Kaladp0278s0030
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 | Assembly | Species | Details
|
|---|---|---|---|---|---|---|
| Kfedtschenkoi_Kaladp0278s0030 [ Kaladp0278s0030] |
Scaffold_278 | 262302 | 264314 | v1.1 | Kalanchoe fedtschenkoi (Phytozome 13) | 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 | Orthologous group | Sequence | Details
|
|---|---|---|---|---|---|---|
| Kfedtschenkoi_Kaladp0278s0030.1 Kaladp0278s0030.1 |
Low | No | 1788 | OG0004174 | Get ORF Coding potential... Type: noncoding Potential: -0.995 Folding energies... MFEI: -25.912 AMFE: -0.689 GC content %: 37.584 | |
| Kfedtschenkoi_Kaladp0278s0030.2 Kaladp0278s0030.2 |
Low | No | 1605 | OG0004174 | Get ORF Coding potential... Type: noncoding Potential: -0.947 Folding energies... MFEI: -26.062 AMFE: -0.696 GC content %: 37.445 | |
| Kfedtschenkoi_Kaladp0278s0030.3 Kaladp0278s0030.3 |
Low | No | 1597 | OG0004174 | Get ORF Coding potential... Type: noncoding Potential: -0.986 Folding energies... MFEI: -25.391 AMFE: -0.674 GC content %: 37.696 | |
| Kfedtschenkoi_Kaladp0278s0030.4 Kaladp0278s0030.4 |
Low | No | 1510 | OG0004174 | Get ORF Coding potential... Type: noncoding Potential: -0.981 Folding energies... MFEI: -26.642 AMFE: -0.713 GC content %: 37.351 | |
| Kfedtschenkoi_Kaladp0278s0030.5 Kaladp0278s0030.5 |
Low | No | 1394 | OG0004174 | Get ORF Coding potential... Type: noncoding Potential: -0.974 Folding energies... MFEI: -26.241 AMFE: -0.702 GC content %: 37.374 | |
| Kfedtschenkoi_Kaladp0278s0030.6 Kaladp0278s0030.6 |
Low | No | 1555 | OG0004174 | Get ORF Coding potential... Type: noncoding Potential: -1.233 Folding energies... MFEI: -27.383 AMFE: -0.680 GC content %: 40.257 | |
| Kfedtschenkoi_Kaladp0278s0030.7 Kaladp0278s0030.7 |
Low | No | 1470 | OG0004174 | Get ORF Coding potential... Type: noncoding Potential: -1.205 Folding energies... MFEI: -26.884 AMFE: -0.672 GC content %: 40.000 |
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 |
|---|---|---|---|---|
| Kfedtschenkoi_Kaladp0278s0030.1 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Pao | |
| Kfedtschenkoi_Kaladp0278s0030.7 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Pao | |
| Kfedtschenkoi_Kaladp0278s0030.2 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Pao | |
| Kfedtschenkoi_Kaladp0278s0030.3 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Pao | |
| Kfedtschenkoi_Kaladp0278s0030.4 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Pao | |
| Kfedtschenkoi_Kaladp0278s0030.5 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Pao | |
| Kfedtschenkoi_Kaladp0278s0030.6 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Pao |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
