Gene
Bdistachyon Bradi2g12835
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_Bradi2g12835 Bradi2g12835 |
Bd2 | 11220737 | 11223937 | 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_Bradi2g12835.1 Bradi2g12835.1 PAC:32782181 |
Low | Yes | 898 | Get ORF Coding potential... Type: noncoding Potential: -1.195 Folding energies... MFEI: -26.258 AMFE: -0.606 GC content %: 43.318 | |
| Bdistachyon_Bradi2g12835.2 Bradi2g12835.2 PAC:32782180 |
High | No | 752 | Get ORF Coding potential... Type: noncoding Potential: -1.217 Folding energies... MFEI: -23.032 AMFE: -0.550 GC content %: 41.888 | |
| Bdistachyon_Bradi2g12835.3 Bradi2g12835.3 PAC:32782182 |
Low | Yes | 956 | Get ORF Coding potential... Type: noncoding Potential: -1.206 Folding energies... MFEI: -26.914 AMFE: -0.621 GC content %: 43.305 | |
| Bdistachyon_Bradi2g12835.4 Bradi2g12835.4 PAC:32782183 |
High | No | 885 | Get ORF Coding potential... Type: noncoding Potential: -1.250 Folding energies... MFEI: -23.153 AMFE: -0.557 GC content %: 41.582 | |
| Bdistachyon_Bradi2g12835.5 Bradi2g12835.5 PAC:32782178 |
Low | Yes | 963 | Get ORF Coding potential... Type: noncoding Potential: -1.207 Folding energies... MFEI: -26.989 AMFE: -0.625 GC content %: 43.198 | |
| Bdistachyon_Bradi2g12835.6 Bradi2g12835.6 PAC:32782179 |
High | No | 892 | Get ORF Coding potential... Type: noncoding Potential: -1.252 Folding energies... MFEI: -23.262 AMFE: -0.561 GC content %: 41.480 | |
| Bdistachyon_Bradi2g12835.7 Bradi2g12835.7 PAC:32782184 |
Low | Yes | 808 | Get ORF Coding potential... Type: noncoding Potential: -1.175 Folding energies... MFEI: -25.990 AMFE: -0.595 GC content %: 43.688 | |
| Bdistachyon_Bradi2g12835.8 Bradi2g12835.8 PAC:32782185 |
High | No | 738 | Get ORF Coding potential... Type: noncoding Potential: -1.213 Folding energies... MFEI: -22.154 AMFE: -0.531 GC content %: 41.734 |
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_Bradi2g12835.3 | Rfam | 11.0 | MIR1122 | 1.9e-4 |
| Bdistachyon_Bradi2g12835.5 | Rfam | 11.0 | MIR1122 | 1.9e-4 |
| Bdistachyon_Bradi2g12835.7 | Rfam | 11.0 | MIR1122 | 1.6e-4 |
| Bdistachyon_Bradi2g12835.1 | Rfam | 11.0 | MIR1122 | 1.8e-4 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
