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_Genemark1.2946_g CsubellipsoideaC169_Genemark1.2946_g	scaffold_5	1831509	1832194	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_62163 CsubellipsoideaC169_62163 PAC:27387568	Low	Yes	252		Get ORF Coding potential... Type: noncoding Potential: -0.715 Folding energies... MFEI: -45.159 AMFE: -0.725 GC content %: 62.302

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_62163	RepBase (RepeatMasker)	2014-01-31	ZEPP

Gene models

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