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_fgenesh1_pm.C_10039 CsubellipsoideaC169_estExt_fgenesh1_pm.C_10039	scaffold_1	595273	596509	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_52086 CsubellipsoideaC169_52086 PAC:27389253	Low	No	933		Get ORF Coding potential... Type: noncoding Potential: -0.694 Folding energies... MFEI: -34.480 AMFE: -0.658 GC content %: 52.412

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_52086	SwissProt	2015-06-01	Q9T070	1.0e-10

Gene models

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