Gene
Bdistachyon Bradi1g14835
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_Bradi1g14835 Bradi1g14835 |
Bd1 | 11777199 | 11779572 | 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_Bradi1g14835.1 Bradi1g14835.1 PAC:32795760 |
High | No | 285 | Get ORF Coding potential... Type: noncoding Potential: -0.658 Folding energies... MFEI: -25.825 AMFE: -0.598 GC content %: 43.158 | |
| Bdistachyon_Bradi1g14835.2 Bradi1g14835.2 PAC:32795763 |
Low | No | 830 | Get ORF Coding potential... Type: noncoding Potential: -1.116 Folding energies... MFEI: -26.892 AMFE: -0.672 GC content %: 40.000 | |
| Bdistachyon_Bradi1g14835.3 Bradi1g14835.3 PAC:32795764 |
Low | No | 1017 | Get ORF Coding potential... Type: noncoding Potential: -0.993 Folding energies... MFEI: -27.345 AMFE: -0.639 GC content %: 42.773 | |
| Bdistachyon_Bradi1g14835.4 Bradi1g14835.4 PAC:32795762 |
Low | No | 1227 | Get ORF Coding potential... Type: noncoding Potential: -1.192 Folding energies... MFEI: -30.473 AMFE: -0.610 GC content %: 49.959 | |
| Bdistachyon_Bradi1g14835.5 Bradi1g14835.5 PAC:32795761 |
Low | No | 1458 | Get ORF Coding potential... Type: noncoding Potential: -1.050 Folding energies... MFEI: -26.612 AMFE: -0.677 GC content %: 39.300 | |
| Bdistachyon_Bradi1g14835.6 Bradi1g14835.6 PAC:32795765 |
Low | No | 598 | Get ORF Coding potential... Type: noncoding Potential: -1.036 Folding energies... MFEI: -25.786 AMFE: -0.624 GC content %: 41.304 |
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_Bradi1g14835.6 | SwissProt | 2015-06-01 | B0CBB0 | 2.0e-12 |
| Bdistachyon_Bradi1g14835.2 | SwissProt | 2015-06-01 | B0CBB0 | 4.0e-12 |
| Bdistachyon_Bradi1g14835.3 | SwissProt | 2015-06-01 | B0CBB0 | 5.0e-12 |
| Bdistachyon_Bradi1g14835.4 | SwissProt | 2015-06-01 | B0CBB0 | 6.0e-12 |
| Bdistachyon_Bradi1g14835.5 | SwissProt | 2015-06-01 | B0CBB0 | 8.0e-12 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
