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
Mguttatus_Migut.C00078 Migut.C00078	scaffold_3	2821251	2822980	Phytozome	v2.0	Mimulus_guttatus	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
Mguttatus_Migut.C00078.1 Migut.C00078.1 PAC:28945350	Low	No	871		Get ORF Coding potential... Type: noncoding Potential: -0.930 Folding energies... MFEI: -25.603 AMFE: -0.666 GC content %: 38.462
Mguttatus_Migut.C00078.2 Migut.C00078.2 PAC:28945349	Low	No	808		Get ORF Coding potential... Type: noncoding Potential: -0.918 Folding energies... MFEI: -26.349 AMFE: -0.669 GC content %: 39.356

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
Mguttatus_Migut.C00078.2	SwissProt	2015-06-01	Q9FHM4	3.0e-7
Mguttatus_Migut.C00078.1	SwissProt	2015-06-01	Q9FHM4	4.0e-7

Gene models

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