Athaliana AT1G54217
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
|
|---|---|---|---|---|---|---|
| Athaliana_AT1G54217 AT1G54217 |
Chr1 | 20243883 | 20245555 | v11 | Arabidopsis thaliana (Phytozome 13) | 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 | Orthologous group | Sequence | Details
|
|---|---|---|---|---|---|---|
| Athaliana_AT1G54217.1 AT1G54217.1 |
Low | No | 883 | OG0002826 | Get ORF Coding potential... Type: noncoding Potential: -0.820 Folding energies... MFEI: -23.601 AMFE: -0.608 GC content %: 38.845 | |
| Athaliana_AT1G54217.2 AT1G54217.2 |
Low | No | 811 | OG0002826 | Get ORF Coding potential... Type: noncoding Potential: -0.789 Folding energies... MFEI: -24.427 AMFE: -0.631 GC content %: 38.718 | |
| Athaliana_AT1G54217.3 AT1G54217.3 |
Low | No | 869 | OG0002826 | Get ORF Coding potential... Type: noncoding Potential: -0.816 Folding energies... MFEI: -24.039 AMFE: -0.625 GC content %: 38.435 | |
| Athaliana_AT1G54217.4 AT1G54217.4 |
High | No | 1226 | OG0002826 | Get ORF Coding potential... Type: noncoding Potential: -0.896 Folding energies... MFEI: -22.728 AMFE: -0.625 GC content %: 36.378 | |
| Athaliana_AT1G54217.5 AT1G54217.5 |
Low | No | 881 | OG0002826 | Get ORF Coding potential... Type: noncoding Potential: -0.820 Folding energies... MFEI: -23.394 AMFE: -0.610 GC content %: 38.365 | |
| Athaliana_AT1G54217.6 AT1G54217.6 |
Low | No | 1082 | OG0002826 | Get ORF Coding potential... Type: noncoding Potential: -0.869 Folding energies... MFEI: -23.262 AMFE: -0.620 GC content %: 37.523 | |
| Athaliana_AT1G54217.7 AT1G54217.7 |
Low | No | 1005 | OG0002826 | Get ORF Coding potential... Type: noncoding Potential: -0.852 Folding energies... MFEI: -23.234 AMFE: -0.614 GC content %: 37.811 | |
| Athaliana_AT1G54217.8 AT1G54217.8 |
Low | No | 892 | OG0002826 | Get ORF Coding potential... Type: noncoding Potential: -0.814 Folding energies... MFEI: -23.868 AMFE: -0.617 GC content %: 38.677 |
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 |
|---|---|---|---|---|
| Athaliana_AT1G54217.7 | SwissProt | 2021-04-01 | Q8L9S1 | 8.33e-4 |
| Athaliana_AT1G54217.1 | SwissProt | 2021-04-01 | Q8L9S1 | 6.93e-4 |
| Athaliana_AT1G54217.8 | SwissProt | 2021-04-01 | Q8L9S1 | 6.04e-4 |
| Athaliana_AT1G54217.2 | SwissProt | 2021-04-01 | Q8L9S1 | 5.26e-4 |
| Athaliana_AT1G54217.3 | SwissProt | 2021-04-01 | Q8L9S1 | 6.79e-4 |
| Athaliana_AT1G54217.5 | SwissProt | 2021-04-01 | Q8L9S1 | 6.93e-4 |
| Athaliana_AT1G54217.6 | SwissProt | 2021-04-01 | Q8L9S1 | 1.0e-3 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
