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
Obarthii_OBART12G19240 [ OBART12G19240]	12	19728912	19742422	v1	Oryza barthii (Ensembl Plants 51)	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
Obarthii_OBART12G19240.4 OBART12G19240.4	Low	No	218	OG0242956		Get ORF Coding potential... Type: noncoding Potential: -0.693 Folding energies... MFEI: -29.450 AMFE: -0.558 GC content %: 52.752
Obarthii_OBART12G19240.5 OBART12G19240.5	High	No	514	OG0242957		Get ORF Coding potential... Type: noncoding Potential: -0.700 Folding energies... MFEI: -34.397 AMFE: -0.636 GC content %: 54.086

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
Obarthii_OBART12G19240.4	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).