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
Phallii_Pahal.1G334500 [ Pahal.1G334500]	Chr01	51414119	51416455	v3.2	Panicum hallii (Phytozome 13)	Coding? Yes

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
Phallii_Pahal.1G334500.1 Pahal.1G334500.1	Low	No	745	OG0001225		Get ORF Coding potential... Type: noncoding Potential: -0.988 Folding energies... MFEI: -35.664 AMFE: -0.627 GC content %: 56.913
Phallii_Pahal.1G334500.3 Pahal.1G334500.3	High	No	779	OG0055585		Get ORF Coding potential... Type: noncoding Potential: -0.877 Folding energies... MFEI: -35.096 AMFE: -0.614 GC content %: 57.125

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
Phallii_Pahal.1G334500.1	SwissProt	2021-04-01	Q6NNL9	5.46e-6

Gene models

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