Gene
Bdistachyon Bradi1g43196
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_Bradi1g43196 Bradi1g43196 |
Bd1 | 40942258 | 40944427 | 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_Bradi1g43196.1 Bradi1g43196.1 PAC:32799758 |
Low | No | 1530 | Get ORF Coding potential... Type: noncoding Potential: -0.160 Folding energies... MFEI: -27.612 AMFE: -0.579 GC content %: 47.712 | |
| Bdistachyon_Bradi1g43196.2 Bradi1g43196.2 PAC:32799754 |
Low | No | 1920 | Get ORF Coding potential... Type: noncoding Potential: -0.153 Folding energies... MFEI: -25.748 AMFE: -0.578 GC content %: 44.583 | |
| Bdistachyon_Bradi1g43196.3 Bradi1g43196.3 PAC:32799757 |
Low | No | 1466 | Get ORF Coding potential... Type: noncoding Potential: -0.154 Folding energies... MFEI: -27.570 AMFE: -0.568 GC content %: 48.568 | |
| Bdistachyon_Bradi1g43196.4 Bradi1g43196.4 PAC:32799755 |
Low | No | 1893 | Get ORF Coding potential... Type: noncoding Potential: -0.151 Folding energies... MFEI: -25.799 AMFE: -0.579 GC content %: 44.585 | |
| Bdistachyon_Bradi1g43196.5 Bradi1g43196.5 PAC:32799756 |
Low | No | 1439 | Get ORF Coding potential... Type: noncoding Potential: -0.151 Folding energies... MFEI: -27.441 AMFE: -0.564 GC content %: 48.645 | |
| Bdistachyon_Bradi1g43196.6 Bradi1g43196.6 PAC:32799759 |
High | No | 919 | Get ORF Coding potential... Type: noncoding Potential: -1.128 Folding energies... MFEI: -28.865 AMFE: -0.519 GC content %: 55.604 |
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_Bradi1g43196.2 | SwissProt | 2015-06-01 | Q9STW5 | 6.0e-13 |
| Bdistachyon_Bradi1g43196.3 | SwissProt | 2015-06-01 | Q9STW5 | 2.0e-12 |
| Bdistachyon_Bradi1g43196.4 | SwissProt | 2015-06-01 | Q9STW5 | 5.0e-13 |
| Bdistachyon_Bradi1g43196.5 | SwissProt | 2015-06-01 | Q9STW5 | 2.0e-12 |
| Bdistachyon_Bradi1g43196.1 | SwissProt | 2015-06-01 | Q9STW5 | 2.0e-12 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
