Gene
Zmays GRMZM2G140758
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_GRMZM2G140758 GRMZM2G140758 |
7 | 175242512 | 175243488 | 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_GRMZM2G140758_T01 GRMZM2G140758_T01 PAC:30993414 |
Low | No | 962 | Get ORF Coding potential... Type: noncoding Potential: -1.075 Folding energies... MFEI: -27.879 AMFE: -0.565 GC content %: 49.376 | |
| Zmays_GRMZM2G140758_T02 GRMZM2G140758_T02 PAC:30993413 |
Low | No | 975 | Get ORF Coding potential... Type: noncoding Potential: -0.904 Folding energies... MFEI: -28.349 AMFE: -0.576 GC content %: 49.231 | |
| Zmays_GRMZM2G140758_T03 GRMZM2G140758_T03 PAC:30993412 |
Low | No | 915 | Get ORF Coding potential... Type: noncoding Potential: -0.977 Folding energies... MFEI: -27.978 AMFE: -0.559 GC content %: 50.055 |
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_GRMZM2G140758_T01 | SwissProt | 2015-06-01 | O13825 | 1.0e-4 |
| Zmays_GRMZM2G140758_T02 | SwissProt | 2015-06-01 | O13825 | 1.0e-4 |
| Zmays_GRMZM2G140758_T03 | SwissProt | 2015-06-01 | O13825 | 1.0e-4 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
