Gene
Graimondii Gorai.009G336300
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.009G336300 Gorai.009G336300 |
Chr09 | 36385153 | 36389326 | Phytozome | v2.1 | Gossypium_raimondii | 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
|
|---|---|---|---|---|---|
| Graimondii_Gorai.009G336300.1 Gorai.009G336300.1 PAC:26770102 |
Low | No | 1111 | Get ORF Coding potential... Type: noncoding Potential: -0.821 Folding energies... MFEI: -25.491 AMFE: -0.665 GC content %: 38.344 | |
| Graimondii_Gorai.009G336300.2 Gorai.009G336300.2 PAC:26770100 |
Low | No | 641 | Get ORF Coding potential... Type: noncoding Potential: -0.719 Folding energies... MFEI: -23.080 AMFE: -0.609 GC content %: 37.910 | |
| Graimondii_Gorai.009G336300.3 Gorai.009G336300.3 PAC:26770101 |
Low | No | 958 | Get ORF Coding potential... Type: noncoding Potential: -0.798 Folding energies... MFEI: -24.739 AMFE: -0.668 GC content %: 37.056 | |
| Graimondii_Gorai.009G336300.4 Gorai.009G336300.4 PAC:26770103 |
Low | No | 794 | Get ORF Coding potential... Type: noncoding Potential: -0.764 Folding energies... MFEI: -24.673 AMFE: -0.624 GC content %: 39.547 | |
| Graimondii_Gorai.009G336300.5 Gorai.009G336300.5 PAC:26770099 |
Low | No | 734 | Get ORF Coding potential... Type: noncoding Potential: -0.748 Folding energies... MFEI: -24.305 AMFE: -0.630 GC content %: 38.556 |
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.009G336300.2 | SwissProt | 2015-06-01 | Q9T0H2 | 1.0e-4 |
| Graimondii_Gorai.009G336300.3 | SwissProt | 2015-06-01 | Q9T0H2 | 3.0e-4 |
| Graimondii_Gorai.009G336300.4 | SwissProt | 2015-06-01 | Q9FFT9 | 1.0e-7 |
| Graimondii_Gorai.009G336300.5 | SwissProt | 2015-06-01 | Q9T0H2 | 2.0e-4 |
| Graimondii_Gorai.009G336300.1 | SwissProt | 2015-06-01 | Q9FFT9 | 3.0e-7 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
