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
CsubellipsoideaC169_estExt_Genemark1.C_40555 CsubellipsoideaC169_estExt_Genemark1.C_40555	scaffold_4	2907515	2909496	Phytozome	v2.0	Coccomyxa_subellipsoidea_C-169	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
CsubellipsoideaC169_65322 CsubellipsoideaC169_65322 PAC:27389690	Low	No	1208		Get ORF Coding potential... Type: noncoding Potential: -0.344 Folding energies... MFEI: -31.383 AMFE: -0.657 GC content %: 47.765

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
CsubellipsoideaC169_65322	RepBase (RepeatMasker)	2014-01-31	(CAA)n

Gene models

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