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_Aqcoe7G062300 [ Aqcoe7G062300]	Chr_07	3775851	3778814	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_Aqcoe7G062300.1 Aqcoe7G062300.1	Low	No	1299	OG0026715		Get ORF Coding potential... Type: noncoding Potential: -1.142 Folding energies... MFEI: -19.923 AMFE: -0.548 GC content %: 36.336
Acoerulea_Aqcoe7G062300.2 Aqcoe7G062300.2	High	No	905	OG0087001		Get ORF Coding potential... Type: noncoding Potential: -1.085 Folding energies... MFEI: -18.232 AMFE: -0.509 GC content %: 35.801
Acoerulea_Aqcoe7G062300.3 Aqcoe7G062300.3	Low	No	974	OG0026715		Get ORF Coding potential... Type: noncoding Potential: -1.404 Folding energies... MFEI: -22.485 AMFE: -0.628 GC content %: 35.832

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_Aqcoe7G062300.1	SwissProt	2021-04-01	Q8VZV7	5.3e-5
Acoerulea_Aqcoe7G062300.3	SwissProt	2021-04-01	Q8VZV7	3.65e-5

Gene models

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