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
Mesculenta_Manes.03G087303 [ Manes.03G087303]	Chromosome03	17337112	17344411	v8.1	Manihot esculenta (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
Mesculenta_Manes.03G087303.1 Manes.03G087303.1	Low	No	973	OG0019785		Get ORF Coding potential... Type: noncoding Potential: -0.400 Folding energies... MFEI: -21.747 AMFE: -0.577 GC content %: 37.718
Mesculenta_Manes.03G087303.2 Manes.03G087303.2	High	No	1170	OG0019785		Get ORF Coding potential... Type: noncoding Potential: -0.533 Folding energies... MFEI: -20.803 AMFE: -0.566 GC content %: 36.752
Mesculenta_Manes.03G087303.5 Manes.03G087303.5	High	No	901	OG0019785		Get ORF Coding potential... Type: noncoding Potential: -0.499 Folding energies... MFEI: -21.321 AMFE: -0.544 GC content %: 39.179

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
Mesculenta_Manes.03G087303.1	RepBase (RepeatMasker)	2014-01-31	DNA/hAT-hATm

Gene models

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