Gtomentosum Gotom.A12G160000
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.A12G160000 [ Gotom.A12G160000] |
A12 | 81964701 | 81967190 | 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.A12G160000.1 Gotom.A12G160000.1 |
Low | No | 1071 | OG0000057 | Get ORF Coding potential... Type: noncoding Potential: -1.059 Folding energies... MFEI: -28.217 AMFE: -0.713 GC content %: 39.589 | |
| Gtomentosum_Gotom.A12G160000.2 Gotom.A12G160000.2 |
Low | No | 1014 | OG0000057 | Get ORF Coding potential... Type: noncoding Potential: -1.053 Folding energies... MFEI: -27.564 AMFE: -0.701 GC content %: 39.349 | |
| Gtomentosum_Gotom.A12G160000.3 Gotom.A12G160000.3 |
Low | No | 1024 | OG0000057 | Get ORF Coding potential... Type: noncoding Potential: -1.273 Folding energies... MFEI: -27.363 AMFE: -0.695 GC content %: 39.355 | |
| Gtomentosum_Gotom.A12G160000.4 Gotom.A12G160000.4 |
Low | No | 967 | OG0000057 | Get ORF Coding potential... Type: noncoding Potential: -1.178 Folding energies... MFEI: -26.732 AMFE: -0.684 GC content %: 39.090 | |
| Gtomentosum_Gotom.A12G160000.5 Gotom.A12G160000.5 |
Low | No | 1024 | OG0000057 | Get ORF Coding potential... Type: noncoding Potential: -1.037 Folding energies... MFEI: -27.598 AMFE: -0.696 GC content %: 39.648 | |
| Gtomentosum_Gotom.A12G160000.6 Gotom.A12G160000.6 |
Low | No | 947 | OG0000057 | Get ORF Coding potential... Type: noncoding Potential: -1.198 Folding energies... MFEI: -27.413 AMFE: -0.685 GC content %: 40.021 |
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.A12G160000.5 | SwissProt | 2021-04-01 | O65573 | 2.37e-7 |
| Gtomentosum_Gotom.A12G160000.6 | SwissProt | 2021-04-01 | O65573 | 1.04e-6 |
| Gtomentosum_Gotom.A12G160000.1 | SwissProt | 2021-04-01 | O65573 | 4.45e-7 |
| Gtomentosum_Gotom.A12G160000.2 | SwissProt | 2021-04-01 | O65573 | 2.32e-7 |
| Gtomentosum_Gotom.A12G160000.3 | SwissProt | 2021-04-01 | O65573 | 2.03e-6 |
| Gtomentosum_Gotom.A12G160000.4 | SwissProt | 2021-04-01 | O65573 | 2.04e-7 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
