Gtomentosum Gotom.A03G193200
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 | Assembly | Species | Details
|
|---|---|---|---|---|---|---|
| Gtomentosum_Gotom.A03G193200 [ Gotom.A03G193200] |
A03 | 100327702 | 100336582 | v1.1 | Gossypium tomentosum (Phytozome 13) | 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 | Orthologous group | Sequence | Details
|
|---|---|---|---|---|---|---|
| Gtomentosum_Gotom.A03G193200.1 Gotom.A03G193200.1 |
Low | No | 762 | OG0000254 | Get ORF Coding potential... Type: noncoding Potential: -1.070 Folding energies... MFEI: -24.357 AMFE: -0.569 GC content %: 42.782 | |
| Gtomentosum_Gotom.A03G193200.2 Gotom.A03G193200.2 |
Low | No | 733 | OG0000254 | Get ORF Coding potential... Type: noncoding Potential: -1.061 Folding energies... MFEI: -24.502 AMFE: -0.577 GC content %: 42.428 | |
| Gtomentosum_Gotom.A03G193200.3 Gotom.A03G193200.3 |
Low | No | 717 | OG0000254 | Get ORF Coding potential... Type: noncoding Potential: -1.055 Folding energies... MFEI: -24.142 AMFE: -0.569 GC content %: 42.399 | |
| Gtomentosum_Gotom.A03G193200.4 Gotom.A03G193200.4 |
Low | No | 710 | OG0000254 | Get ORF Coding potential... Type: noncoding Potential: -1.053 Folding energies... MFEI: -24.394 AMFE: -0.575 GC content %: 42.394 | |
| Gtomentosum_Gotom.A03G193200.5 Gotom.A03G193200.5 |
High | No | 749 | OG0000254 | Get ORF Coding potential... Type: noncoding Potential: -1.066 Folding energies... MFEI: -23.071 AMFE: -0.586 GC content %: 39.386 |
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 |
|---|---|---|---|---|
| Gtomentosum_Gotom.A03G193200.4 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Gypsy | |
| Gtomentosum_Gotom.A03G193200.1 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Gypsy | |
| Gtomentosum_Gotom.A03G193200.2 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Gypsy | |
| Gtomentosum_Gotom.A03G193200.3 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Gypsy |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
