Gene
Bdistachyon Bradi1g69180
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_Bradi1g69180 Bradi1g69180 |
Bd1 | 67887063 | 67893129 | 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_Bradi1g69180.10 Bradi1g69180.10 PAC:32801159 |
Low | Yes | 1462 | Get ORF Coding potential... Type: noncoding Potential: -0.787 Folding energies... MFEI: -35.739 AMFE: -0.656 GC content %: 54.446 | |
| Bdistachyon_Bradi1g69180.11 Bradi1g69180.11 PAC:32801160 |
Low | Yes | 2883 | Get ORF Coding potential... Type: noncoding Potential: -0.895 Folding energies... MFEI: -30.087 AMFE: -0.644 GC content %: 46.687 | |
| Bdistachyon_Bradi1g69180.12 Bradi1g69180.12 PAC:32801161 |
Low | Yes | 4933 | Get ORF Coding potential... Type: noncoding Potential: -0.946 Folding energies... MFEI: -30.835 AMFE: -0.698 GC content %: 44.152 | |
| Bdistachyon_Bradi1g69180.13 Bradi1g69180.13 PAC:32801162 |
Low | Yes | 3036 | Get ORF Coding potential... Type: noncoding Potential: -0.901 Folding energies... MFEI: -32.543 AMFE: -0.670 GC content %: 48.584 | |
| Bdistachyon_Bradi1g69180.8 Bradi1g69180.8 PAC:32801163 |
Low | Yes | 3047 | Get ORF Coding potential... Type: noncoding Potential: -0.901 Folding energies... MFEI: -32.301 AMFE: -0.665 GC content %: 48.540 | |
| Bdistachyon_Bradi1g69180.9 Bradi1g69180.9 PAC:32801158 |
High | No | 1315 | Get ORF Coding potential... Type: noncoding Potential: -0.764 Folding energies... MFEI: -31.392 AMFE: -0.616 GC content %: 50.951 |
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_Bradi1g69180.8 | miRBase | 21.0 | bdi-miR5174e-3p.2 | 0.014 |
| Bdistachyon_Bradi1g69180.13 | RepBase (RepeatMasker) | 2014-01-31 | HADES_TA | |
| Bdistachyon_Bradi1g69180.12 | Rfam | 11.0 | MIR1122 | 2.9e-14 |
| Bdistachyon_Bradi1g69180.8 | RepBase (RepeatMasker) | 2014-01-31 | HADES_TA | |
| Bdistachyon_Bradi1g69180.13 | Rfam | 11.0 | MIR1122 | 1.8e-14 |
| Bdistachyon_Bradi1g69180.13 | miRBase | 21.0 | tae-miR5049-3p | 1.0e-3 |
| Bdistachyon_Bradi1g69180.8 | Rfam | 11.0 | MIR1122 | 1.8e-14 |
| Bdistachyon_Bradi1g69180.13 | miRBase | 21.0 | bdi-miR5174e-3p.2 | 0.014 |
| Bdistachyon_Bradi1g69180.11 | RepBase (RepeatMasker) | 2014-01-31 | HADES_TA | |
| Bdistachyon_Bradi1g69180.8 | miRBase | 21.0 | tae-miR5049-3p | 1.0e-3 |
... further results
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
