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
Omeridionalis_OMERI01G00170 [ OMERI01G00170]	1	157939	159421	v1.3	Oryza meridionalis (Ensembl Plants 51)	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
Omeridionalis_OMERI01G00170.1 OMERI01G00170.1	High	No	942	OG0054104		Get ORF Coding potential... Type: noncoding Potential: -0.983 Folding energies... MFEI: -34.013 AMFE: -0.698 GC content %: 48.726
Omeridionalis_OMERI01G00170.2 OMERI01G00170.2	Low	No	875	OG0054104		Get ORF Coding potential... Type: coding Potential: 2.766 Folding energies... MFEI: -36.069 AMFE: -0.712 GC content %: 50.629

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
Omeridionalis_OMERI01G00170.2	RepBase (RepeatMasker)	2014-01-31	LINE/I

Gene models

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