Graimondii B456 008G021900
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 | Assembly | Species | Details
|
|---|---|---|---|---|---|---|
| Graimondii_B456_008G021900 [ B456_008G021900] |
8 | 2498189 | 2501068 | v6 | Gossypium raimondii (Ensembl Plants 51) | 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 | Orthologous group | Sequence | Details
|
|---|---|---|---|---|---|---|
| Graimondii_KJB47335 KJB47335 |
Low | No | 967 | OG0001211 | Get ORF Coding potential... Type: noncoding Potential: -1.218 Folding energies... MFEI: -25.336 AMFE: -0.566 GC content %: 44.778 | |
| Graimondii_KJB47336 KJB47336 |
Low | No | 2005 | OG0001211 | Get ORF Coding potential... Type: noncoding Potential: -1.263 Folding energies... MFEI: -24.494 AMFE: -0.623 GC content %: 39.302 | |
| Graimondii_KJB47337 KJB47337 |
Low | No | 750 | OG0001211 | Get ORF Coding potential... Type: noncoding Potential: -1.194 Folding energies... MFEI: -23.840 AMFE: -0.499 GC content %: 47.733 |
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_KJB47335 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Gypsy | |
| Graimondii_KJB47336 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Gypsy | |
| Graimondii_KJB47337 | RepBase (RepeatMasker) | 2014-01-31 | LTR/Gypsy |
Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).
