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
Athaliana_AT2G37975 AT2G37975	Chr2	15891735	15893639	v11	Arabidopsis thaliana (Phytozome 13)	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	Orthologous group	Sequence	Details
Athaliana_AT2G37975.1 AT2G37975.1	High	No	786	OG0065775		Get ORF Coding potential... Type: noncoding Potential: -0.830 Folding energies... MFEI: -19.529 AMFE: -0.540 GC content %: 36.132
Athaliana_AT2G37975.2 AT2G37975.2	Low	No	373	OG0065776		Get ORF Coding potential... Type: noncoding Potential: -0.923 Folding energies... MFEI: -21.877 AMFE: -0.526 GC content %: 41.555

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
Athaliana_AT2G37975.2	SwissProt	2021-04-01	O13825	1.0e-3

Gene models

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