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
Ncolorata_Nycol.F01359 [ Nycol.F01359]	GWHAAYW00000006	19314160	19328249	v1.2	Nymphaea colorata (Phytozome 13)	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
Ncolorata_Nycol.F01359.17 Nycol.F01359.17	Low	No	1234	OG0052131		Get ORF Coding potential... Type: noncoding Potential: -0.538 Folding energies... MFEI: -28.404 AMFE: -0.660 GC content %: 43.031
Ncolorata_Nycol.F01359.3 Nycol.F01359.3	Low	No	1426	OG0052131		Get ORF Coding potential... Type: noncoding Potential: -0.579 Folding energies... MFEI: -28.990 AMFE: -0.668 GC content %: 43.408

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
Ncolorata_Nycol.F01359.17	SwissProt	2021-04-01	A3KPP3	9.8e-5
Ncolorata_Nycol.F01359.3	SwissProt	2021-04-01	A3KPP3	1.18e-4

Gene models

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