Graimondii B456 010G0867002
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 | Assembly | Species | Details
|
|---|---|---|---|---|---|---|
| Graimondii_B456_010G0867002 [ B456_010G0867002] |
10 | 13109625 | 13111163 | v6 | Gossypium raimondii (Ensembl Plants 51) | 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 | Orthologous group | Sequence | Details
|
|---|---|---|---|---|---|---|
| Graimondii_KJB63440 KJB63440 |
Low | No | 275 | OG0011878 | Get ORF Coding potential... Type: noncoding Potential: -1.223 Folding energies... MFEI: -22.800 AMFE: -0.494 GC content %: 46.182 | |
| Graimondii_KJB63441 KJB63441 |
Low | No | 1439 | OG0011878 | Get ORF Coding potential... Type: noncoding Potential: -0.063 Folding energies... MFEI: -22.397 AMFE: -0.676 GC content %: 33.148 | |
| Graimondii_KJB63442 KJB63442 |
Low | No | 416 | OG0011878 | Get ORF Coding potential... Type: noncoding Potential: -0.378 Folding energies... MFEI: -21.154 AMFE: -0.587 GC content %: 36.058 | |
| Graimondii_KJB63443 KJB63443 |
Low | No | 1506 | OG0011878 | Get ORF Coding potential... Type: noncoding Potential: -0.068 Folding energies... MFEI: -22.875 AMFE: -0.675 GC content %: 33.865 |
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_KJB63440 | SwissProt | 2021-04-01 | Q9SKI2 | 1.16e-9 |
| Graimondii_KJB63441 | SwissProt | 2021-04-01 | Q9SKI2 | 3.51e-13 |
| Graimondii_KJB63442 | SwissProt | 2021-04-01 | Q9SKI2 | 6.43e-15 |
| Graimondii_KJB63443 | SwissProt | 2021-04-01 | Q9SKI2 | 3.77e-13 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
