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
Gmax_Glyma.11G155468 [ Glyma.11G155468]	Gm11	11642920	11645652	A4v1	Glycine max (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
Gmax_Glyma.11G155468.1 Glyma.11G155468.1	Low	No	981	OG0031897		Get ORF Coding potential... Type: noncoding Potential: -0.821 Folding energies... MFEI: -26.544 AMFE: -0.668 GC content %: 39.755
Gmax_Glyma.11G155468.2 Glyma.11G155468.2	Low	No	937	OG0031897		Get ORF Coding potential... Type: noncoding Potential: -0.842 Folding energies... MFEI: -26.403 AMFE: -0.656 GC content %: 40.235

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
Gmax_Glyma.11G155468.1	SwissProt	2021-04-01	P47816	4.87e-8
Gmax_Glyma.11G155468.2	SwissProt	2021-04-01	Q2YDC9	5.97e-7

Gene models

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