Gmustelinum Gomus.A05G020400
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
|
|---|---|---|---|---|---|---|
| Gmustelinum_Gomus.A05G020400 [ Gomus.A05G020400] |
A05 | 1855042 | 1858140 | v1.1 | Gossypium mustelinum (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
|
|---|---|---|---|---|---|---|
| Gmustelinum_Gomus.A05G020400.1 Gomus.A05G020400.1 |
High | No | 1258 | OG0001984 | Get ORF Coding potential... Type: noncoding Potential: -0.872 Folding energies... MFEI: -23.100 AMFE: -0.592 GC content %: 39.030 | |
| Gmustelinum_Gomus.A05G020400.10 Gomus.A05G020400.10 |
High | No | 732 | OG0000630 | Get ORF Coding potential... Type: noncoding Potential: -1.117 Folding energies... MFEI: -22.500 AMFE: -0.612 GC content %: 36.749 | |
| Gmustelinum_Gomus.A05G020400.11 Gomus.A05G020400.11 |
High | No | 1072 | OG0001984 | Get ORF Coding potential... Type: noncoding Potential: -1.247 Folding energies... MFEI: -22.379 AMFE: -0.609 GC content %: 36.754 | |
| Gmustelinum_Gomus.A05G020400.12 Gomus.A05G020400.12 |
Low | No | 985 | OG0011612 | Get ORF Coding potential... Type: noncoding Potential: -1.166 Folding energies... MFEI: -23.117 AMFE: -0.638 GC content %: 36.244 | |
| Gmustelinum_Gomus.A05G020400.13 Gomus.A05G020400.13 |
High | No | 1040 | OG0001984 | Get ORF Coding potential... Type: noncoding Potential: -1.245 Folding energies... MFEI: -22.337 AMFE: -0.605 GC content %: 36.923 | |
| Gmustelinum_Gomus.A05G020400.14 Gomus.A05G020400.14 |
High | No | 700 | OG0000630 | Get ORF Coding potential... Type: noncoding Potential: -1.080 Folding energies... MFEI: -22.771 AMFE: -0.615 GC content %: 37.000 | |
| Gmustelinum_Gomus.A05G020400.15 Gomus.A05G020400.15 |
Low | No | 1116 | OG0000366 | Get ORF Coding potential... Type: noncoding Potential: -1.251 Folding energies... MFEI: -22.966 AMFE: -0.634 GC content %: 36.201 | |
| Gmustelinum_Gomus.A05G020400.16 Gomus.A05G020400.16 |
Low | No | 1207 | OG0000905 | Get ORF Coding potential... Type: noncoding Potential: -1.256 Folding energies... MFEI: -22.900 AMFE: -0.627 GC content %: 36.537 | |
| Gmustelinum_Gomus.A05G020400.17 Gomus.A05G020400.17 |
Low | No | 1232 | OG0000905 | Get ORF Coding potential... Type: noncoding Potential: -1.258 Folding energies... MFEI: -22.963 AMFE: -0.631 GC content %: 36.364 | |
| Gmustelinum_Gomus.A05G020400.18 Gomus.A05G020400.18 |
Low | No | 1225 | OG0000905 | Get ORF Coding potential... Type: noncoding Potential: -1.257 Folding energies... MFEI: -22.767 AMFE: -0.627 GC content %: 36.327 | |
| Gmustelinum_Gomus.A05G020400.19 Gomus.A05G020400.19 |
High | No | 935 | OG0000630 | Get ORF Coding potential... Type: noncoding Potential: -1.137 Folding energies... MFEI: -22.909 AMFE: -0.610 GC content %: 37.540 | |
| Gmustelinum_Gomus.A05G020400.2 Gomus.A05G020400.2 |
High | No | 918 | OG0000630 | Get ORF Coding potential... Type: noncoding Potential: -0.835 Folding energies... MFEI: -23.115 AMFE: -0.580 GC content %: 39.869 | |
| Gmustelinum_Gomus.A05G020400.20 Gomus.A05G020400.20 |
High | No | 843 | OG0000630 | Get ORF Coding potential... Type: noncoding Potential: -1.155 Folding energies... MFEI: -22.301 AMFE: -0.601 GC content %: 37.129 | |
| Gmustelinum_Gomus.A05G020400.21 Gomus.A05G020400.21 |
High | No | 811 | OG0000630 | Get ORF Coding potential... Type: noncoding Potential: -1.119 Folding energies... MFEI: -22.133 AMFE: -0.592 GC content %: 37.361 | |
| Gmustelinum_Gomus.A05G020400.3 Gomus.A05G020400.3 |
High | No | 1015 | OG0000630 | Get ORF Coding potential... Type: noncoding Potential: -0.847 Folding energies... MFEI: -24.522 AMFE: -0.610 GC content %: 40.197 | |
| Gmustelinum_Gomus.A05G020400.4 Gomus.A05G020400.4 |
High | No | 1029 | OG0000630 | Get ORF Coding potential... Type: noncoding Potential: -0.849 Folding energies... MFEI: -23.256 AMFE: -0.584 GC content %: 39.845 | |
| Gmustelinum_Gomus.A05G020400.5 Gomus.A05G020400.5 |
High | No | 955 | OG0000630 | Get ORF Coding potential... Type: noncoding Potential: -1.238 Folding energies... MFEI: -22.796 AMFE: -0.615 GC content %: 37.068 | |
| Gmustelinum_Gomus.A05G020400.6 Gomus.A05G020400.6 |
Low | No | 992 | OG0000630 | Get ORF Coding potential... Type: noncoding Potential: -1.152 Folding energies... MFEI: -23.266 AMFE: -0.641 GC content %: 36.290 | |
| Gmustelinum_Gomus.A05G020400.7 Gomus.A05G020400.7 |
Low | No | 1123 | OG0000366 | Get ORF Coding potential... Type: noncoding Potential: -1.251 Folding energies... MFEI: -23.072 AMFE: -0.637 GC content %: 36.242 | |
| Gmustelinum_Gomus.A05G020400.8 Gomus.A05G020400.8 |
Low | No | 1017 | OG0000630 | Get ORF Coding potential... Type: noncoding Potential: -1.260 Folding energies... MFEI: -23.215 AMFE: -0.643 GC content %: 36.087 | |
| Gmustelinum_Gomus.A05G020400.9 Gomus.A05G020400.9 |
Low | No | 1148 | OG0000366 | Get ORF Coding potential... Type: noncoding Potential: -1.253 Folding energies... MFEI: -23.031 AMFE: -0.639 GC content %: 36.063 |
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 |
|---|---|---|---|---|
| Gmustelinum_Gomus.A05G020400.17 | RepBase (RepeatMasker) | 2014-01-31 | LTR/DIRS | |
| Gmustelinum_Gomus.A05G020400.18 | RepBase (RepeatMasker) | 2014-01-31 | LTR/DIRS | |
| Gmustelinum_Gomus.A05G020400.6 | RepBase (RepeatMasker) | 2014-01-31 | LTR/DIRS | |
| Gmustelinum_Gomus.A05G020400.12 | RepBase (RepeatMasker) | 2014-01-31 | LTR/DIRS | |
| Gmustelinum_Gomus.A05G020400.7 | RepBase (RepeatMasker) | 2014-01-31 | LTR/DIRS | |
| Gmustelinum_Gomus.A05G020400.15 | RepBase (RepeatMasker) | 2014-01-31 | LTR/DIRS | |
| Gmustelinum_Gomus.A05G020400.8 | RepBase (RepeatMasker) | 2014-01-31 | LTR/DIRS | |
| Gmustelinum_Gomus.A05G020400.16 | RepBase (RepeatMasker) | 2014-01-31 | LTR/DIRS | |
| Gmustelinum_Gomus.A05G020400.9 | RepBase (RepeatMasker) | 2014-01-31 | LTR/DIRS |
Gene models
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
