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
Sviridis_Sevir.3G289200 [ Sevir.3G289200]	Chr_03	25124479	25129160	v2.1	Setaria viridis (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
Sviridis_Sevir.3G289200.1 Sevir.3G289200.1	Low	No	1596	OG0021805		Get ORF Coding potential... Type: noncoding Potential: -1.119 Folding energies... MFEI: -31.742 AMFE: -0.660 GC content %: 48.058
Sviridis_Sevir.3G289200.2 Sevir.3G289200.2	High	No	1123	OG0021805		Get ORF Coding potential... Type: noncoding Potential: -1.001 Folding energies... MFEI: -31.042 AMFE: -0.623 GC content %: 49.866
Sviridis_Sevir.3G289200.3 Sevir.3G289200.3	High	No	968	OG0021805		Get ORF Coding potential... Type: noncoding Potential: -0.945 Folding energies... MFEI: -33.182 AMFE: -0.618 GC content %: 53.719

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
Sviridis_Sevir.3G289200.1	RepBase (RepeatMasker)	2014-01-31	LTR/Gypsy

Gene models

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