Ghirsutum Gohir.A10G057300
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 | Assembly | Species | Details
|
|---|---|---|---|---|---|---|
| Ghirsutum_Gohir.A10G057300 [ Gohir.A10G057300] |
A10 | 6351961 | 6356437 | v2.1 | Gossypium hirsutum (Phytozome 13) | Coding? No |
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 | Orthologous group | Sequence | Details
|
|---|---|---|---|---|---|---|
| Ghirsutum_Gohir.A10G057300.10 Gohir.A10G057300.10 |
High | No | 1418 | OG0174427 | Get ORF Coding potential... Type: noncoding Potential: -0.912 Folding energies... MFEI: -24.929 AMFE: -0.664 GC content %: 37.518 | |
| Ghirsutum_Gohir.A10G057300.11 Gohir.A10G057300.11 |
High | No | 1462 | OG0174428 | Get ORF Coding potential... Type: noncoding Potential: -0.918 Folding energies... MFEI: -25.178 AMFE: -0.678 GC content %: 37.141 | |
| Ghirsutum_Gohir.A10G057300.12 Gohir.A10G057300.12 |
High | No | 1381 | OG0002621 | Get ORF Coding potential... Type: noncoding Potential: -0.907 Folding energies... MFEI: -24.779 AMFE: -0.662 GC content %: 37.437 | |
| Ghirsutum_Gohir.A10G057300.13 Gohir.A10G057300.13 |
High | No | 1180 | OG0002621 | Get ORF Coding potential... Type: noncoding Potential: -0.875 Folding energies... MFEI: -24.347 AMFE: -0.641 GC content %: 37.966 | |
| Ghirsutum_Gohir.A10G057300.14 Gohir.A10G057300.14 |
High | No | 1094 | OG0033916 | Get ORF Coding potential... Type: noncoding Potential: -0.859 Folding energies... MFEI: -24.835 AMFE: -0.638 GC content %: 38.940 | |
| Ghirsutum_Gohir.A10G057300.15 Gohir.A10G057300.15 |
High | No | 1175 | OG0002621 | Get ORF Coding potential... Type: noncoding Potential: -0.874 Folding energies... MFEI: -24.255 AMFE: -0.640 GC content %: 37.872 | |
| Ghirsutum_Gohir.A10G057300.16 Gohir.A10G057300.16 |
High | No | 1272 | OG0002621 | Get ORF Coding potential... Type: noncoding Potential: -0.891 Folding energies... MFEI: -25.118 AMFE: -0.670 GC content %: 37.500 | |
| Ghirsutum_Gohir.A10G057300.17 Gohir.A10G057300.17 |
High | No | 1532 | OG0174429 | Get ORF Coding potential... Type: noncoding Potential: -0.926 Folding energies... MFEI: -24.967 AMFE: -0.665 GC content %: 37.533 | |
| Ghirsutum_Gohir.A10G057300.18 Gohir.A10G057300.18 |
Low | No | 1185 | OG0001685 | Get ORF Coding potential... Type: noncoding Potential: -0.984 Folding energies... MFEI: -23.553 AMFE: -0.624 GC content %: 37.722 | |
| Ghirsutum_Gohir.A10G057300.19 Gohir.A10G057300.19 |
High | No | 1341 | OG0174430 | Get ORF Coding potential... Type: noncoding Potential: -1.068 Folding energies... MFEI: -24.377 AMFE: -0.656 GC content %: 37.136 | |
| Ghirsutum_Gohir.A10G057300.2 Gohir.A10G057300.2 |
High | No | 1331 | OG0002621 | Get ORF Coding potential... Type: noncoding Potential: -0.900 Folding energies... MFEI: -24.576 AMFE: -0.646 GC content %: 38.017 | |
| Ghirsutum_Gohir.A10G057300.20 Gohir.A10G057300.20 |
High | No | 1455 | OG0174431 | Get ORF Coding potential... Type: noncoding Potential: -1.076 Folding energies... MFEI: -24.460 AMFE: -0.658 GC content %: 37.182 | |
| Ghirsutum_Gohir.A10G057300.3 Gohir.A10G057300.3 |
High | No | 1326 | OG0002621 | Get ORF Coding potential... Type: noncoding Potential: -0.899 Folding energies... MFEI: -24.525 AMFE: -0.647 GC content %: 37.934 | |
| Ghirsutum_Gohir.A10G057300.4 Gohir.A10G057300.4 |
High | No | 1253 | OG0174432 | Get ORF Coding potential... Type: noncoding Potential: -1.061 Folding energies... MFEI: -23.982 AMFE: -0.638 GC content %: 37.590 | |
| Ghirsutum_Gohir.A10G057300.8 Gohir.A10G057300.8 |
Low | No | 1262 | OG0002621 | Get ORF Coding potential... Type: noncoding Potential: -0.856 Folding energies... MFEI: -24.580 AMFE: -0.645 GC content %: 38.114 | |
| Ghirsutum_Gohir.A10G057300.9 Gohir.A10G057300.9 |
Low | No | 1257 | OG0002621 | Get ORF Coding potential... Type: noncoding Potential: -0.856 Folding energies... MFEI: -24.527 AMFE: -0.645 GC content %: 38.027 |
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 |
|---|---|---|---|---|
| Ghirsutum_Gohir.A10G057300.18 | SwissProt | 2021-04-01 | Q8L9S1 | 3.44e-4 |
| Ghirsutum_Gohir.A10G057300.8 | SwissProt | 2021-04-01 | Q8L9S1 | 1.4e-4 |
| Ghirsutum_Gohir.A10G057300.9 | SwissProt | 2021-04-01 | Q8L9S1 | 1.39e-4 |
Gene models
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
