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
Klaxiflora_Kalax.0268s0016 Kalax.0268s0016	scaffold_268	91472	94660	Phytozome		[[Species:|]]"Species:" cannot be used as a page name in this wiki.	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
Klaxiflora_Kalax.0268s0016.1 Kalax.0268s0016.1 PAC:32550132	Low	No	2260		Get ORF Coding potential... Type: noncoding Potential: -0.812 Folding energies... MFEI: -27.358 AMFE: -0.665 GC content %: 41.150
Klaxiflora_Kalax.0268s0016.2 Kalax.0268s0016.2 PAC:32550133	High	No	637		Get ORF Coding potential... Type: noncoding Potential: -0.565 Folding energies... MFEI: -28.760 AMFE: -0.627 GC content %: 45.840

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
Klaxiflora_Kalax.0268s0016.1	SwissProt	2015-06-01	O78328	1.0e-35

Gene models

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