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.18G090500 Glyma.18G090500	Chr18	8979176	8986302	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.18G090500.1 Glyma.18G090500.1 PAC:30555826	Low	No	687		Get ORF Coding potential... Type: noncoding Potential: -0.481 Folding energies... MFEI: -22.780 AMFE: -0.624 GC content %: 36.536
Gmax_Glyma.18G090500.2 Glyma.18G090500.2 PAC:30555825	Low	No	677		Get ORF Coding potential... Type: noncoding Potential: -0.477 Folding energies... MFEI: -22.792 AMFE: -0.547 GC content %: 41.654

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.18G090500.2	SwissProt	2015-06-01	O74503	2.0e-7
Gmax_Glyma.18G090500.1	SwissProt	2015-06-01	O74503	2.0e-7

Gene models

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