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
Gdarwinii_Godar.A03G157400 [ Godar.A03G157400]	A03	87735538	87739357	v1.1	Gossypium darwinii (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
Gdarwinii_Godar.A03G157400.1 Godar.A03G157400.1	High	No	760	OG0004114		Get ORF Coding potential... Type: noncoding Potential: -0.791 Folding energies... MFEI: -22.461 AMFE: -0.635 GC content %: 35.395
Gdarwinii_Godar.A03G157400.2 Godar.A03G157400.2	Low	No	725	OG0004114		Get ORF Coding potential... Type: noncoding Potential: -0.940 Folding energies... MFEI: -21.931 AMFE: -0.624 GC content %: 35.172

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
Gdarwinii_Godar.A03G157400.2	SwissProt	2021-04-01	Q5R4A3	3.78e-4

Gene models

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