Gene
Graimondii Gorai.004G102500
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.004G102500 Gorai.004G102500 |
Chr04 | 19069881 | 19072409 | 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.004G102500.1 Gorai.004G102500.1 PAC:26771768 |
Low | No | 1045 | Get ORF Coding potential... Type: noncoding Potential: -0.775 Folding energies... MFEI: -26.230 AMFE: -0.672 GC content %: 39.043 | |
| Graimondii_Gorai.004G102500.2 Gorai.004G102500.2 PAC:26771764 |
Low | No | 929 | Get ORF Coding potential... Type: noncoding Potential: -0.748 Folding energies... MFEI: -24.962 AMFE: -0.648 GC content %: 38.536 | |
| Graimondii_Gorai.004G102500.3 Gorai.004G102500.3 PAC:26771766 |
Low | No | 966 | Get ORF Coding potential... Type: noncoding Potential: -0.758 Folding energies... MFEI: -26.014 AMFE: -0.676 GC content %: 38.509 | |
| Graimondii_Gorai.004G102500.4 Gorai.004G102500.4 PAC:26771769 |
Low | No | 953 | Get ORF Coding potential... Type: noncoding Potential: -0.684 Folding energies... MFEI: -25.782 AMFE: -0.673 GC content %: 38.300 | |
| Graimondii_Gorai.004G102500.5 Gorai.004G102500.5 PAC:26771770 |
Low | No | 1111 | Get ORF Coding potential... Type: noncoding Potential: -0.789 Folding energies... MFEI: -23.825 AMFE: -0.641 GC content %: 37.174 | |
| Graimondii_Gorai.004G102500.6 Gorai.004G102500.6 PAC:26771765 |
Low | No | 1104 | Get ORF Coding potential... Type: noncoding Potential: -0.787 Folding energies... MFEI: -25.000 AMFE: -0.668 GC content %: 37.409 | |
| Graimondii_Gorai.004G102500.7 Gorai.004G102500.7 PAC:26771767 |
Low | No | 1050 | Get ORF Coding potential... Type: noncoding Potential: -0.776 Folding energies... MFEI: -24.419 AMFE: -0.657 GC content %: 37.143 | |
| Graimondii_Gorai.004G102500.8 Gorai.004G102500.8 PAC:26771763 |
Low | No | 1004 | Get ORF Coding potential... Type: noncoding Potential: -0.766 Folding energies... MFEI: -24.572 AMFE: -0.660 GC content %: 37.251 |
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.004G102500.8 | SwissProt | 2015-06-01 | Q9SI78 | 7.0e-4 |
| Graimondii_Gorai.004G102500.3 | SwissProt | 2015-06-01 | Q9SI78 | 6.0e-4 |
| Graimondii_Gorai.004G102500.4 | SwissProt | 2015-06-01 | Q9SI78 | 6.0e-4 |
| Graimondii_Gorai.004G102500.5 | SwissProt | 2015-06-01 | Q9SI78 | 8.0e-4 |
| Graimondii_Gorai.004G102500.6 | SwissProt | 2015-06-01 | Q9SI78 | 8.0e-4 |
| Graimondii_Gorai.004G102500.1 | SwissProt | 2015-06-01 | Q9SI78 | 7.0e-4 |
| Graimondii_Gorai.004G102500.7 | SwissProt | 2015-06-01 | Q9SI78 | 8.0e-4 |
| Graimondii_Gorai.004G102500.2 | SwissProt | 2015-06-01 | Q9SI78 | 6.0e-4 |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
