Gene
Graimondii Gorai.009G278500
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.009G278500 Gorai.009G278500 |
Chr09 | 23444920 | 23447987 | 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.009G278500.1 Gorai.009G278500.1 PAC:26770195 |
High | No | 1377 | Get ORF Coding potential... Type: noncoding Potential: -0.826 Folding energies... MFEI: -25.926 AMFE: -0.656 GC content %: 39.506 | |
| Graimondii_Gorai.009G278500.10 Gorai.009G278500.10 PAC:26770193 |
High | No | 1097 | Get ORF Coding potential... Type: noncoding Potential: -0.683 Folding energies... MFEI: -24.129 AMFE: -0.635 GC content %: 38.013 | |
| Graimondii_Gorai.009G278500.11 Gorai.009G278500.11 PAC:26770194 |
High | No | 911 | Get ORF Coding potential... Type: noncoding Potential: -0.635 Folding energies... MFEI: -26.059 AMFE: -0.643 GC content %: 40.505 | |
| Graimondii_Gorai.009G278500.12 Gorai.009G278500.12 PAC:26770200 |
Low | No | 613 | Get ORF Coding potential... Type: noncoding Potential: -0.615 Folding energies... MFEI: -24.780 AMFE: -0.598 GC content %: 41.436 | |
| Graimondii_Gorai.009G278500.2 Gorai.009G278500.2 PAC:26770192 |
High | No | 1367 | Get ORF Coding potential... Type: noncoding Potential: -0.519 Folding energies... MFEI: -26.035 AMFE: -0.663 GC content %: 39.283 | |
| Graimondii_Gorai.009G278500.3 Gorai.009G278500.3 PAC:26770198 |
High | No | 1066 | Get ORF Coding potential... Type: noncoding Potential: -0.602 Folding energies... MFEI: -25.732 AMFE: -0.647 GC content %: 39.775 | |
| Graimondii_Gorai.009G278500.4 Gorai.009G278500.4 PAC:26770199 |
High | No | 1076 | Get ORF Coding potential... Type: noncoding Potential: -0.937 Folding energies... MFEI: -25.539 AMFE: -0.638 GC content %: 40.056 | |
| Graimondii_Gorai.009G278500.5 Gorai.009G278500.5 PAC:26770201 |
High | No | 1290 | Get ORF Coding potential... Type: noncoding Potential: -1.029 Folding energies... MFEI: -26.085 AMFE: -0.660 GC content %: 39.535 | |
| Graimondii_Gorai.009G278500.6 Gorai.009G278500.6 PAC:26770196 |
Low | No | 920 | Get ORF Coding potential... Type: noncoding Potential: -0.296 Folding energies... MFEI: -25.598 AMFE: -0.635 GC content %: 40.326 | |
| Graimondii_Gorai.009G278500.7 Gorai.009G278500.7 PAC:26770197 |
Low | No | 930 | Get ORF Coding potential... Type: noncoding Potential: -0.556 Folding energies... MFEI: -25.602 AMFE: -0.630 GC content %: 40.645 | |
| Graimondii_Gorai.009G278500.8 Gorai.009G278500.8 PAC:26770203 |
Low | No | 843 | Get ORF Coding potential... Type: noncoding Potential: -0.766 Folding energies... MFEI: -25.991 AMFE: -0.637 GC content %: 40.807 | |
| Graimondii_Gorai.009G278500.9 Gorai.009G278500.9 PAC:26770202 |
Low | No | 881 | Get ORF Coding potential... Type: noncoding Potential: -0.952 Folding energies... MFEI: -25.709 AMFE: -0.626 GC content %: 41.090 |
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.009G278500.9 | SwissProt | 2015-06-01 | Q10S83 | 8.0e-4 |
| Graimondii_Gorai.009G278500.12 | SwissProt | 2015-06-01 | Q10S83 | 3.0e-4 |
| Graimondii_Gorai.009G278500.6 | SwissProt | 2015-06-01 | Q10S83 | 8.0e-4 |
| Graimondii_Gorai.009G278500.7 | SwissProt | 2015-06-01 | Q10S83 | 9.0e-4 |
| Graimondii_Gorai.009G278500.8 | SwissProt | 2015-06-01 | Q10S83 | 7.0e-4 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
