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	Source	Assembly	Species	Details
Gmax_Glyma.03G084100 Glyma.03G084100	Chr03	23694303	23699320	Phytozome	Wm82.a2.v1	Glycine_max	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	Sequence	Details
Gmax_Glyma.03G084100.1 Glyma.03G084100.1 PAC:30516625	Low	No	1213		Get ORF Coding potential... Type: noncoding Potential: -0.925 Folding energies... MFEI: -24.196 AMFE: -0.564 GC content %: 42.869
Gmax_Glyma.03G084100.2 Glyma.03G084100.2 PAC:30516627	Low	No	3035		Get ORF Coding potential... Type: noncoding Potential: -0.338 Folding energies... MFEI: -25.460 AMFE: -0.681 GC content %: 37.364
Gmax_Glyma.03G084100.3 Glyma.03G084100.3 PAC:30516624	High	No	1172		Get ORF Coding potential... Type: noncoding Potential: -0.917 Folding energies... MFEI: -23.276 AMFE: -0.561 GC content %: 41.468
Gmax_Glyma.03G084100.4 Glyma.03G084100.4 PAC:30516626	High	No	1238		Get ORF Coding potential... Type: noncoding Potential: -1.018 Folding energies... MFEI: -24.362 AMFE: -0.595 GC content %: 40.953

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.03G084100.1	SwissProt	2015-06-01	Q8LPT3	1.0e-24
Gmax_Glyma.03G084100.2	SwissProt	2015-06-01	Q8LPT3	5.0e-24

Gene models

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