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
Opunctata_OPUNC11G04070 [ OPUNC11G04070]	11	3568898	3574599	v1.2	Oryza punctata (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
Opunctata_OPUNC11G04070.1 OPUNC11G04070.1	High	No	201	OG0055100		Get ORF Coding potential... Type: noncoding Potential: -0.466 Folding energies... MFEI: -27.214 AMFE: -0.472 GC content %: 57.711
Opunctata_OPUNC11G04070.2 OPUNC11G04070.2	Low	No	794	OG0055100		Get ORF Coding potential... Type: noncoding Potential: -0.950 Folding energies... MFEI: -27.116 AMFE: -0.633 GC content %: 42.821

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
Opunctata_OPUNC11G04070.2	RepBase (RepeatMasker)	2014-01-31	DNA/PIF-Harbinger

Gene models

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