Gene
Taestivum Traes 3B 8BE7F9D0C
From GreeNC
Gene information
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
|
|---|---|---|---|---|---|---|---|
| Taestivum_Traes_3B_8BE7F9D0C Traes_3B_8BE7F9D0C |
ta_iwgsc_3b_v1_10394905 | 1480 | 7407 | Phytozome | v2.2 | Triticum_aestivum | Coding? Yes |
Transcript features
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
|
|---|---|---|---|---|---|
| Taestivum_Traes_3B_8BE7F9D0C.1 Traes_3B_8BE7F9D0C.1 PAC:31802826 |
High | No | 666 | Get ORF Coding potential... Type: noncoding Potential: -0.643 Folding energies... MFEI: -41.381 AMFE: -0.636 GC content %: 65.015 | |
| Taestivum_Traes_3B_8BE7F9D0C.10 Traes_3B_8BE7F9D0C.10 PAC:31802831 |
Low | No | 2003 | Get ORF Coding potential... Type: noncoding Potential: -0.746 Folding energies... MFEI: -32.926 AMFE: -0.681 GC content %: 48.328 | |
| Taestivum_Traes_3B_8BE7F9D0C.12 Traes_3B_8BE7F9D0C.12 PAC:31802830 |
Low | No | 2565 | Get ORF Coding potential... Type: noncoding Potential: -0.776 Folding energies... MFEI: -31.563 AMFE: -0.681 GC content %: 46.355 | |
| Taestivum_Traes_3B_8BE7F9D0C.13 Traes_3B_8BE7F9D0C.13 PAC:31802838 |
Low | No | 2313 | Get ORF Coding potential... Type: noncoding Potential: -0.961 Folding energies... MFEI: -30.099 AMFE: -0.676 GC content %: 44.531 | |
| Taestivum_Traes_3B_8BE7F9D0C.14 Traes_3B_8BE7F9D0C.14 PAC:31802840 |
Low | No | 2028 | Get ORF Coding potential... Type: noncoding Potential: -1.238 Folding energies... MFEI: -28.111 AMFE: -0.671 GC content %: 41.864 | |
| Taestivum_Traes_3B_8BE7F9D0C.15 Traes_3B_8BE7F9D0C.15 PAC:31802839 |
Low | No | 1870 | Get ORF Coding potential... Type: noncoding Potential: -1.229 Folding energies... MFEI: -27.610 AMFE: -0.658 GC content %: 41.979 | |
| Taestivum_Traes_3B_8BE7F9D0C.3 Traes_3B_8BE7F9D0C.3 PAC:31802833 |
Low | No | 2768 | Get ORF Coding potential... Type: noncoding Potential: -0.769 Folding energies... MFEI: -30.824 AMFE: -0.681 GC content %: 45.267 | |
| Taestivum_Traes_3B_8BE7F9D0C.4 Traes_3B_8BE7F9D0C.4 PAC:31802828 |
Low | No | 2625 | Get ORF Coding potential... Type: noncoding Potential: -0.772 Folding energies... MFEI: -31.101 AMFE: -0.679 GC content %: 45.829 | |
| Taestivum_Traes_3B_8BE7F9D0C.5 Traes_3B_8BE7F9D0C.5 PAC:31802837 |
Low | No | 2041 | Get ORF Coding potential... Type: noncoding Potential: -0.866 Folding energies... MFEI: -32.161 AMFE: -0.674 GC content %: 47.722 | |
| Taestivum_Traes_3B_8BE7F9D0C.6 Traes_3B_8BE7F9D0C.6 PAC:31802829 |
Low | No | 2476 | Get ORF Coding potential... Type: noncoding Potential: -0.772 Folding energies... MFEI: -31.494 AMFE: -0.677 GC content %: 46.486 | |
| Taestivum_Traes_3B_8BE7F9D0C.7 Traes_3B_8BE7F9D0C.7 PAC:31802832 |
Low | No | 2535 | Get ORF Coding potential... Type: noncoding Potential: -0.774 Folding energies... MFEI: -31.345 AMFE: -0.678 GC content %: 46.233 | |
| Taestivum_Traes_3B_8BE7F9D0C.8 Traes_3B_8BE7F9D0C.8 PAC:31802835 |
Low | No | 2769 | Get ORF Coding potential... Type: noncoding Potential: -0.785 Folding energies... MFEI: -30.711 AMFE: -0.679 GC content %: 45.251 | |
| Taestivum_Traes_3B_8BE7F9D0C.9 Traes_3B_8BE7F9D0C.9 PAC:31802836 |
Low | No | 2313 | Get ORF Coding potential... Type: noncoding Potential: -0.764 Folding energies... MFEI: -31.898 AMFE: -0.676 GC content %: 47.168 |
Matches to external databases
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 |
|---|---|---|---|---|
| Taestivum_Traes_3B_8BE7F9D0C.9 | RepBase (RepeatMasker) | 2014-01-31 | ATCopia52_I-int | |
| Taestivum_Traes_3B_8BE7F9D0C.4 | RepBase (RepeatMasker) | 2014-01-31 | ATCopia52_I-int | |
| Taestivum_Traes_3B_8BE7F9D0C.12 | RepBase (RepeatMasker) | 2014-01-31 | ATCopia52_I-int | |
| Taestivum_Traes_3B_8BE7F9D0C.5 | RepBase (RepeatMasker) | 2014-01-31 | ATCopia52_I-int | |
| Taestivum_Traes_3B_8BE7F9D0C.13 | RepBase (RepeatMasker) | 2014-01-31 | ATCopia52_I-int | |
| Taestivum_Traes_3B_8BE7F9D0C.6 | RepBase (RepeatMasker) | 2014-01-31 | ATCopia52_I-int | |
| Taestivum_Traes_3B_8BE7F9D0C.14 | RepBase (RepeatMasker) | 2014-01-31 | ATCopia52_I-int | |
| Taestivum_Traes_3B_8BE7F9D0C.7 | RepBase (RepeatMasker) | 2014-01-31 | ATCopia52_I-int | |
| Taestivum_Traes_3B_8BE7F9D0C.15 | RepBase (RepeatMasker) | 2014-01-31 | ATCopia52_I-int | |
| Taestivum_Traes_3B_8BE7F9D0C.8 | RepBase (RepeatMasker) | 2014-01-31 | ATCopia52_I-int |
... further results
Gene models
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
