Gtomentosum Gotom.A05G020600
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
|
|---|---|---|---|---|---|---|
| Gtomentosum_Gotom.A05G020600 [ Gotom.A05G020600] |
A05 | 1825148 | 1827075 | v1.1 | Gossypium tomentosum (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
|
|---|---|---|---|---|---|---|
| Gtomentosum_Gotom.A05G020600.1 Gotom.A05G020600.1 |
Low | No | 1223 | OG0000366 | Get ORF Coding potential... Type: noncoding Potential: -1.257 Folding energies... MFEI: -22.862 AMFE: -0.640 GC content %: 35.732 | |
| Gtomentosum_Gotom.A05G020600.10 Gotom.A05G020600.10 |
Low | No | 923 | OG0000366 | Get ORF Coding potential... Type: noncoding Potential: -1.235 Folding energies... MFEI: -23.879 AMFE: -0.630 GC content %: 37.920 | |
| Gtomentosum_Gotom.A05G020600.11 Gotom.A05G020600.11 |
Low | No | 1102 | OG0000366 | Get ORF Coding potential... Type: noncoding Potential: -1.250 Folding energies... MFEI: -23.975 AMFE: -0.641 GC content %: 37.387 | |
| Gtomentosum_Gotom.A05G020600.12 Gotom.A05G020600.12 |
Low | No | 971 | OG0000630 | Get ORF Coding potential... Type: noncoding Potential: -1.172 Folding energies... MFEI: -24.295 AMFE: -0.646 GC content %: 37.590 | |
| Gtomentosum_Gotom.A05G020600.13 Gotom.A05G020600.13 |
Low | No | 939 | OG0011612 | Get ORF Coding potential... Type: noncoding Potential: -1.136 Folding energies... MFEI: -24.228 AMFE: -0.641 GC content %: 37.806 | |
| Gtomentosum_Gotom.A05G020600.14 Gotom.A05G020600.14 |
Low | No | 1070 | OG0000366 | Get ORF Coding potential... Type: noncoding Potential: -1.165 Folding energies... MFEI: -23.935 AMFE: -0.637 GC content %: 37.570 | |
| Gtomentosum_Gotom.A05G020600.15 Gotom.A05G020600.15 |
High | No | 549 | OG0000905 | Get ORF Coding potential... Type: noncoding Potential: -1.010 Folding energies... MFEI: -24.517 AMFE: -0.583 GC content %: 42.077 | |
| Gtomentosum_Gotom.A05G020600.16 Gotom.A05G020600.16 |
High | No | 696 | OG0000630 | Get ORF Coding potential... Type: noncoding Potential: -1.035 Folding energies... MFEI: -24.267 AMFE: -0.597 GC content %: 40.661 | |
| Gtomentosum_Gotom.A05G020600.17 Gotom.A05G020600.17 |
High | No | 1075 | OG0000905 | Get ORF Coding potential... Type: noncoding Potential: -1.248 Folding energies... MFEI: -22.679 AMFE: -0.611 GC content %: 37.116 | |
| Gtomentosum_Gotom.A05G020600.18 Gotom.A05G020600.18 |
High | No | 1068 | OG0000905 | Get ORF Coding potential... Type: noncoding Potential: -1.165 Folding energies... MFEI: -22.491 AMFE: -0.607 GC content %: 37.079 | |
| Gtomentosum_Gotom.A05G020600.2 Gotom.A05G020600.2 |
Low | No | 1076 | OG0000366 | Get ORF Coding potential... Type: noncoding Potential: -1.248 Folding energies... MFEI: -22.825 AMFE: -0.638 GC content %: 35.781 | |
| Gtomentosum_Gotom.A05G020600.3 Gotom.A05G020600.3 |
Low | No | 943 | OG0000905 | Get ORF Coding potential... Type: noncoding Potential: -1.161 Folding energies... MFEI: -22.609 AMFE: -0.633 GC content %: 35.737 | |
| Gtomentosum_Gotom.A05G020600.4 Gotom.A05G020600.4 |
Low | No | 1166 | OG0000905 | Get ORF Coding potential... Type: noncoding Potential: -1.254 Folding energies... MFEI: -21.878 AMFE: -0.612 GC content %: 35.763 | |
| Gtomentosum_Gotom.A05G020600.5 Gotom.A05G020600.5 |
Low | No | 1190 | OG0000905 | Get ORF Coding potential... Type: noncoding Potential: -1.255 Folding energies... MFEI: -21.983 AMFE: -0.618 GC content %: 35.546 | |
| Gtomentosum_Gotom.A05G020600.6 Gotom.A05G020600.6 |
Low | No | 967 | OG0000905 | Get ORF Coding potential... Type: noncoding Potential: -1.270 Folding energies... MFEI: -22.596 AMFE: -0.637 GC content %: 35.471 | |
| Gtomentosum_Gotom.A05G020600.7 Gotom.A05G020600.7 |
Low | No | 1158 | OG0000905 | Get ORF Coding potential... Type: noncoding Potential: -1.253 Folding energies... MFEI: -21.788 AMFE: -0.611 GC content %: 35.665 | |
| Gtomentosum_Gotom.A05G020600.8 Gotom.A05G020600.8 |
Low | No | 935 | OG0011612 | Get ORF Coding potential... Type: noncoding Potential: -1.178 Folding energies... MFEI: -22.471 AMFE: -0.631 GC content %: 35.615 | |
| Gtomentosum_Gotom.A05G020600.9 Gotom.A05G020600.9 |
Low | No | 955 | OG0000366 | Get ORF Coding potential... Type: noncoding Potential: -1.238 Folding energies... MFEI: -23.927 AMFE: -0.635 GC content %: 37.696 |
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 |
|---|---|---|---|---|
| Gtomentosum_Gotom.A05G020600.13 | RepBase (RepeatMasker) | 2014-01-31 | LTR/DIRS | |
| Gtomentosum_Gotom.A05G020600.6 | RepBase (RepeatMasker) | 2014-01-31 | LTR/DIRS | |
| Gtomentosum_Gotom.A05G020600.14 | RepBase (RepeatMasker) | 2014-01-31 | LTR/DIRS | |
| Gtomentosum_Gotom.A05G020600.1 | RepBase (RepeatMasker) | 2014-01-31 | LTR/DIRS | |
| Gtomentosum_Gotom.A05G020600.7 | RepBase (RepeatMasker) | 2014-01-31 | LTR/DIRS | |
| Gtomentosum_Gotom.A05G020600.2 | RepBase (RepeatMasker) | 2014-01-31 | LTR/DIRS | |
| Gtomentosum_Gotom.A05G020600.10 | RepBase (RepeatMasker) | 2014-01-31 | LTR/DIRS | |
| Gtomentosum_Gotom.A05G020600.8 | RepBase (RepeatMasker) | 2014-01-31 | LTR/DIRS | |
| Gtomentosum_Gotom.A05G020600.3 | RepBase (RepeatMasker) | 2014-01-31 | LTR/DIRS | |
| Gtomentosum_Gotom.A05G020600.11 | RepBase (RepeatMasker) | 2014-01-31 | LTR/DIRS |
... further results
Gene models
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
