Gene
Cclementina Ciclev10009941m.g
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
|
|---|---|---|---|---|---|---|---|
| Cclementina_Ciclev10009941m.g Ciclev10009941m.g |
scaffold_1 | 28602402 | 28604161 | Phytozome | v1.0 | Citrus_clementina | 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
|
|---|---|---|---|---|---|
| Cclementina_Ciclev10009941m Ciclev10009941m PAC:20795460 |
Low | No | 682 | Get ORF Coding potential... Type: noncoding Potential: -0.606 Folding energies... MFEI: -27.170 AMFE: -0.630 GC content %: 43.109 | |
| Cclementina_Ciclev10009978m Ciclev10009978m PAC:20795461 |
Low | No | 766 | Get ORF Coding potential... Type: noncoding Potential: -0.686 Folding energies... MFEI: -25.457 AMFE: -0.625 GC content %: 40.731 | |
| Cclementina_Ciclev10009992m Ciclev10009992m PAC:20795462 |
Low | No | 885 | Get ORF Coding potential... Type: noncoding Potential: -0.825 Folding energies... MFEI: -25.254 AMFE: -0.628 GC content %: 40.226 |
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 |
|---|---|---|---|---|
| Cclementina_Ciclev10009978m | SwissProt | 2015-06-01 | Q2M2S5 | 5.0e-5 |
| Cclementina_Ciclev10009992m | SwissProt | 2015-06-01 | Q2M2S5 | 6.0e-5 |
| Cclementina_Ciclev10009941m | SwissProt | 2015-06-01 | Q2M2S5 | 4.0e-5 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
