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
Zmays_Zm00001d003598 [ Zm00001d003598]	2	49332907	49336119	v4	Zea mays (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
Zmays_Zm00001d003598_T005 Zm00001d003598_T005	High	No	566	[1]		Get ORF Coding potential... Type: noncoding Potential: -0.837 Folding energies... MFEI: -36.007 AMFE: -0.621 GC content %: 57.951
Zmays_Zm00001d003598_T006 Zm00001d003598_T006	Low	No	621	[2]		Get ORF Coding potential... Type: noncoding Potential: -0.789 Folding energies... MFEI: -39.694 AMFE: -0.657 GC content %: 60.386

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
Zmays_Zm00001d003598_T006	SwissProt	2021-04-01	Q4GZL0	3.86e-4

Gene models

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