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
Ppatens_Pp3c20_17910 Pp3c20_17910	Chr20	11690014	11691903	Phytozome	v3.3	Physcomitrella_patens	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
Ppatens_Pp3c20_17910V3.2 Pp3c20_17910V3.2 PAC:32946101	Low	No	923		Get ORF Coding potential... Type: noncoding Potential: -0.062 Folding energies... MFEI: -29.307 AMFE: -0.673 GC content %: 43.554
Ppatens_Pp3c20_17910V3.3 Pp3c20_17910V3.3 PAC:32946102	Low	No	913		Get ORF Coding potential... Type: noncoding Potential: -0.846 Folding energies... MFEI: -28.773 AMFE: -0.665 GC content %: 43.264

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
Ppatens_Pp3c20_17910V3.2	SwissProt	2015-06-01	Q552P9	8.0e-9
Ppatens_Pp3c20_17910V3.3	SwissProt	2015-06-01	Q552P9	9.0e-8

Gene models

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