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.14G169200 Glyma.14G169200	Chr14	41885186	41890264	Phytozome	Wm82.a2.v1	Glycine_max	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	Sequence	Details
Gmax_Glyma.14G169200.1 Glyma.14G169200.1 PAC:30532278	High	No	812		Get ORF Coding potential... Type: noncoding Potential: -0.884 Folding energies... MFEI: -25.111 AMFE: -0.669 GC content %: 37.562
Gmax_Glyma.14G169200.2 Glyma.14G169200.2 PAC:30532279	Low	No	544		Get ORF Coding potential... Type: noncoding Potential: -0.782 Folding energies... MFEI: -26.213 AMFE: -0.625 GC content %: 41.912
Gmax_Glyma.14G169200.4 Glyma.14G169200.4 PAC:30532281	High	No	418		Get ORF Coding potential... Type: noncoding Potential: -0.706 Folding energies... MFEI: -25.646 AMFE: -0.592 GC content %: 43.301

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.14G169200.2	RepBase (RepeatMasker)	2014-01-31	MuDR-9_GM

Gene models

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