Gene
Graimondii Gorai.005G164200
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
|
|---|---|---|---|---|---|---|---|
| Graimondii_Gorai.005G164200 Gorai.005G164200 |
Chr05 | 47694769 | 47697266 | Phytozome | v2.1 | Gossypium_raimondii | Coding? Yes |
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
|
|---|---|---|---|---|---|
| Graimondii_Gorai.005G164200.2 Gorai.005G164200.2 PAC:26804346 |
Low | No | 1274 | Get ORF Coding potential... Type: noncoding Potential: -0.743 Folding energies... MFEI: -22.677 AMFE: -0.592 GC content %: 38.305 | |
| Graimondii_Gorai.005G164200.3 Gorai.005G164200.3 PAC:26804347 |
Low | No | 629 | Get ORF Coding potential... Type: noncoding Potential: -1.261 Folding energies... MFEI: -24.404 AMFE: -0.597 GC content %: 40.859 | |
| Graimondii_Gorai.005G164200.4 Gorai.005G164200.4 PAC:26804344 |
Low | No | 672 | Get ORF Coding potential... Type: noncoding Potential: -1.271 Folding energies... MFEI: -24.836 AMFE: -0.607 GC content %: 40.923 | |
| Graimondii_Gorai.005G164200.5 Gorai.005G164200.5 PAC:26804345 |
Low | No | 699 | Get ORF Coding potential... Type: noncoding Potential: -1.277 Folding energies... MFEI: -24.735 AMFE: -0.609 GC content %: 40.629 |
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 |
|---|---|---|---|---|
| Graimondii_Gorai.005G164200.5 | RepBase (RepeatMasker) | 2014-01-31 | ATCopia67_I-int | |
| Graimondii_Gorai.005G164200.2 | RepBase (RepeatMasker) | 2014-01-31 | ATCopia67_I-int | |
| Graimondii_Gorai.005G164200.3 | RepBase (RepeatMasker) | 2014-01-31 | ATCopia67_I-int | |
| Graimondii_Gorai.005G164200.4 | RepBase (RepeatMasker) | 2014-01-31 | ATCopia67_I-int |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
