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.U038400 Glyma.U038400	scaffold_44	70046	73654	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.U038400.1 Glyma.U038400.1 PAC:30541464	Low	No	1909		Get ORF Coding potential... Type: noncoding Potential: -0.735 Folding energies... MFEI: -24.699 AMFE: -0.681 GC content %: 36.249
Gmax_Glyma.U038400.2 Glyma.U038400.2 PAC:30541463	Low	No	1097		Get ORF Coding potential... Type: noncoding Potential: -0.627 Folding energies... MFEI: -25.251 AMFE: -0.638 GC content %: 39.562
Gmax_Glyma.U038400.3 Glyma.U038400.3 PAC:30541465	High	No	1152		Get ORF Coding potential... Type: noncoding Potential: -0.638 Folding energies... MFEI: -23.594 AMFE: -0.625 GC content %: 37.760
Gmax_Glyma.U038400.4 Glyma.U038400.4 PAC:30541466	High	No	1286		Get ORF Coding potential... Type: noncoding Potential: -0.662 Folding energies... MFEI: -23.865 AMFE: -0.637 GC content %: 37.481

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.U038400.1	RepBase (RepeatMasker)	2014-01-31	RTE-1_GM
Gmax_Glyma.U038400.2	RepBase (RepeatMasker)	2014-01-31	RTE-1_GM

Gene models

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