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	Source	Assembly	Species	Details
Tcacao_Thecc1EG012548 Thecc1EG012548	scaffold_3	3754475	3756939	Phytozome	v1.1	Theobroma_cacao	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	Sequence	Details
Tcacao_Thecc1EG012548t1 Thecc1EG012548t1 PAC:27447960	High	No	778		Get ORF Coding potential... Type: noncoding Potential: -0.778 Folding energies... MFEI: -27.506 AMFE: -0.650 GC content %: 42.288
Tcacao_Thecc1EG012548t2 Thecc1EG012548t2 PAC:27447962	High	No	398		Get ORF Coding potential... Type: noncoding Potential: -0.999 Folding energies... MFEI: -22.940 AMFE: -0.534 GC content %: 42.965
Tcacao_Thecc1EG012548t3 Thecc1EG012548t3 PAC:27447961	High	No	532		Get ORF Coding potential... Type: noncoding Potential: -0.665 Folding energies... MFEI: -24.549 AMFE: -0.565 GC content %: 43.421

Gene models

Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).