Gene
Zmays GRMZM2G014979
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
|
|---|---|---|---|---|---|---|---|
| Zmays_GRMZM2G014979 GRMZM2G014979 |
3 | 184209613 | 184211341 | Phytozome | 6a | Zea_mays | 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
|
|---|---|---|---|---|---|
| Zmays_GRMZM2G014979_T01 GRMZM2G014979_T01 PAC:31032663 |
Low | No | 1002 | Get ORF Coding potential... Type: noncoding Potential: -1.051 Folding energies... MFEI: -25.579 AMFE: -0.595 GC content %: 43.014 | |
| Zmays_GRMZM2G014979_T02 GRMZM2G014979_T02 PAC:31032662 |
Low | No | 1337 | Get ORF Coding potential... Type: noncoding Potential: -1.081 Folding energies... MFEI: -26.343 AMFE: -0.606 GC content %: 43.455 | |
| Zmays_GRMZM2G014979_T03 GRMZM2G014979_T03 PAC:31032661 |
Low | No | 1717 | Get ORF Coding potential... Type: noncoding Potential: -1.102 Folding energies... MFEI: -27.967 AMFE: -0.640 GC content %: 43.681 |
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 |
|---|---|---|---|---|
| Zmays_GRMZM2G014979_T03 | RepBase (RepeatMasker) | 2014-01-31 | HARB-11_SBi | |
| Zmays_GRMZM2G014979_T01 | RepBase (RepeatMasker) | 2014-01-31 | HARB-13_SBi | |
| Zmays_GRMZM2G014979_T02 | RepBase (RepeatMasker) | 2014-01-31 | HARB-13_SBi |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
