Gene
Bdistachyon Bradi1g13223
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
|
|---|---|---|---|---|---|---|---|
| Bdistachyon_Bradi1g13223 Bradi1g13223 |
Bd1 | 10024330 | 10027265 | Phytozome | v3.1 | Brachypodium_distachyon | 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
|
|---|---|---|---|---|---|
| Bdistachyon_Bradi1g13223.1 Bradi1g13223.1 PAC:32803316 |
Low | No | 1446 | Get ORF Coding potential... Type: noncoding Potential: -0.993 Folding energies... MFEI: -29.412 AMFE: -0.615 GC content %: 47.856 | |
| Bdistachyon_Bradi1g13223.2 Bradi1g13223.2 PAC:32803315 |
Low | No | 1338 | Get ORF Coding potential... Type: noncoding Potential: -0.984 Folding energies... MFEI: -29.955 AMFE: -0.612 GC content %: 48.954 | |
| Bdistachyon_Bradi1g13223.3 Bradi1g13223.3 PAC:32803313 |
Low | No | 1725 | Get ORF Coding potential... Type: noncoding Potential: -1.013 Folding energies... MFEI: -29.009 AMFE: -0.626 GC content %: 46.319 | |
| Bdistachyon_Bradi1g13223.4 Bradi1g13223.4 PAC:32803314 |
Low | No | 1617 | Get ORF Coding potential... Type: noncoding Potential: -1.006 Folding energies... MFEI: -29.326 AMFE: -0.622 GC content %: 47.124 |
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 |
|---|---|---|---|---|
| Bdistachyon_Bradi1g13223.4 | SwissProt | 2015-06-01 | P82861 | 4.0e-4 |
| Bdistachyon_Bradi1g13223.1 | SwissProt | 2015-06-01 | P82861 | 3.0e-4 |
| Bdistachyon_Bradi1g13223.2 | SwissProt | 2015-06-01 | P82861 | 3.0e-4 |
| Bdistachyon_Bradi1g13223.3 | SwissProt | 2015-06-01 | P82861 | 4.0e-4 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
