Gene
Graimondii Gorai.003G074500
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 | Source | Assembly | Species | Details
|
|---|---|---|---|---|---|---|---|
| Graimondii_Gorai.003G074500 Gorai.003G074500 |
Chr03 | 17791764 | 17794754 | Phytozome | v2.1 | Gossypium_raimondii | 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 | Sequence | Details
|
|---|---|---|---|---|---|
| Graimondii_Gorai.003G074500.1 Gorai.003G074500.1 PAC:26797480 |
High | No | 590 | Get ORF Coding potential... Type: noncoding Potential: -0.922 Folding energies... MFEI: -25.322 AMFE: -0.676 GC content %: 37.458 | |
| Graimondii_Gorai.003G074500.2 Gorai.003G074500.2 PAC:26797483 |
High | No | 920 | Get ORF Coding potential... Type: noncoding Potential: -0.861 Folding energies... MFEI: -23.957 AMFE: -0.648 GC content %: 36.957 | |
| Graimondii_Gorai.003G074500.3 Gorai.003G074500.3 PAC:26797482 |
Low | No | 760 | Get ORF Coding potential... Type: noncoding Potential: -0.974 Folding energies... MFEI: -23.737 AMFE: -0.658 GC content %: 36.053 | |
| Graimondii_Gorai.003G074500.4 Gorai.003G074500.4 PAC:26797484 |
Low | No | 757 | Get ORF Coding potential... Type: noncoding Potential: -0.948 Folding energies... MFEI: -23.659 AMFE: -0.658 GC content %: 35.931 | |
| Graimondii_Gorai.003G074500.5 Gorai.003G074500.5 PAC:26797481 |
High | No | 982 | Get ORF Coding potential... Type: noncoding Potential: -0.859 Folding energies... MFEI: -23.890 AMFE: -0.665 GC content %: 35.947 |
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 |
|---|---|---|---|---|
| Graimondii_Gorai.003G074500.3 | SwissProt | 2015-06-01 | Q7XZU1 | 4.0e-7 |
| Graimondii_Gorai.003G074500.4 | SwissProt | 2015-06-01 | Q7XZU1 | 4.0e-7 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
