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	Assembly	Species	Details
Hannuus_HanXRQChr16g0501551 [ HanXRQChr16g0501551]	HanXRQChr16	14509548	14510361	r1.2	Helianthus annuus (Phytozome 13)	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	Orthologous group	Sequence	Details
Hannuus_HanXRQChr16g0501551 HanXRQChr16g0501551	Low	No	657	OG0190047		Get ORF Coding potential... Type: noncoding Potential: -0.785 Folding energies... MFEI: -23.760 AMFE: -0.615 GC content %: 38.661

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
Hannuus_HanXRQChr16g0501551	RepBase (RepeatMasker)	2014-01-31	DNA/Maverick

Gene models

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