Gene
Graimondii Gorai.006G151100
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.006G151100 Gorai.006G151100 |
Chr06 | 41023672 | 41026517 | 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.006G151100.1 Gorai.006G151100.1 PAC:26833451 |
Low | No | 2309 | Get ORF Coding potential... Type: noncoding Potential: -0.938 Folding energies... MFEI: -24.638 AMFE: -0.627 GC content %: 39.281 | |
| Graimondii_Gorai.006G151100.2 Gorai.006G151100.2 PAC:26833453 |
Low | No | 1066 | Get ORF Coding potential... Type: noncoding Potential: -0.877 Folding energies... MFEI: -23.705 AMFE: -0.582 GC content %: 40.713 | |
| Graimondii_Gorai.006G151100.3 Gorai.006G151100.3 PAC:26833454 |
Low | No | 1579 | Get ORF Coding potential... Type: noncoding Potential: -0.903 Folding energies... MFEI: -24.224 AMFE: -0.612 GC content %: 39.582 | |
| Graimondii_Gorai.006G151100.5 Gorai.006G151100.5 PAC:26833452 |
Low | No | 876 | Get ORF Coding potential... Type: noncoding Potential: -0.952 Folding energies... MFEI: -27.237 AMFE: -0.612 GC content %: 44.521 |
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.006G151100.1 | RepBase (RepeatMasker) | 2014-01-31 | (CCTAG)n | |
| Graimondii_Gorai.006G151100.2 | RepBase (RepeatMasker) | 2014-01-31 | (CCTAG)n | |
| Graimondii_Gorai.006G151100.3 | RepBase (RepeatMasker) | 2014-01-31 | (CCTAG)n | |
| Graimondii_Gorai.006G151100.5 | RepBase (RepeatMasker) | 2014-01-31 | (CCTAG)n |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
