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
Acoerulea_Aqcoe4G230200 [ Aqcoe4G230200]	Chr_04	36895195	36895964	v3.1	Aquilegia coerulea (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
Acoerulea_Aqcoe4G230200.1 Aqcoe4G230200.1	Low	No	618	OG0026660		Get ORF Coding potential... Type: noncoding Potential: -1.136 Folding energies... MFEI: -20.340 AMFE: -0.535 GC content %: 38.026
Acoerulea_Aqcoe4G230200.2 Aqcoe4G230200.2	Low	No	585	OG0026660		Get ORF Coding potential... Type: noncoding Potential: -1.129 Folding energies... MFEI: -19.419 AMFE: -0.519 GC content %: 37.436

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
Acoerulea_Aqcoe4G230200.1	SwissProt	2021-04-01	Q94HW2	2.82e-8
Acoerulea_Aqcoe4G230200.1	RepBase (RepeatMasker)	2014-01-31	LTR/Copia
Acoerulea_Aqcoe4G230200.2	RepBase (RepeatMasker)	2014-01-31	LTR/Copia

Gene models

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