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.03G074700 [ Glyma.03G074700]	Gm03	19747229	19749528	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.03G074700.1 Glyma.03G074700.1	High	No	656	OG0007345		Get ORF Coding potential... Type: noncoding Potential: -0.818 Folding energies... MFEI: -25.000 AMFE: -0.667 GC content %: 37.500
Gmax_Glyma.03G074700.11 Glyma.03G074700.11	High	No	714	OG0007345		Get ORF Coding potential... Type: noncoding Potential: -0.813 Folding energies... MFEI: -24.314 AMFE: -0.663 GC content %: 36.695
Gmax_Glyma.03G074700.12 Glyma.03G074700.12	High	No	653	OG0007345		Get ORF Coding potential... Type: noncoding Potential: -0.963 Folding energies... MFEI: -23.874 AMFE: -0.642 GC content %: 37.213
Gmax_Glyma.03G074700.13 Glyma.03G074700.13	High	No	812	OG0007345		Get ORF Coding potential... Type: noncoding Potential: -1.018 Folding energies... MFEI: -25.431 AMFE: -0.662 GC content %: 38.424
Gmax_Glyma.03G074700.14 Glyma.03G074700.14	High	No	815	OG0007345		Get ORF Coding potential... Type: noncoding Potential: -1.016 Folding energies... MFEI: -25.595 AMFE: -0.666 GC content %: 38.405
Gmax_Glyma.03G074700.15 Glyma.03G074700.15	Low	No	234	OG0165480		Get ORF Coding potential... Type: noncoding Potential: -0.711 Folding energies... MFEI: -24.615 AMFE: -0.582 GC content %: 42.308

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.03G074700.15	SwissProt	2021-04-01	Q3B8G7	4.28e-4

Gene models

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