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
Aalpina_AALP_AA6G324800 [ AALP_AA6G324800]	6	33392047	33395064	v4	Arabis alpina (Ensembl Plants 51)	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
Aalpina_KFK33061 KFK33061	Low	No	397	OG0027207		Get ORF Coding potential... Type: noncoding Potential: -0.824 Folding energies... MFEI: -17.859 AMFE: -0.486 GC content %: 36.776
Aalpina_KFK33062 KFK33062	Low	No	648	OG0027207		Get ORF Coding potential... Type: noncoding Potential: -0.912 Folding energies... MFEI: -22.978 AMFE: -0.600 GC content %: 38.272

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
Aalpina_KFK33061	SwissProt	2021-04-01	A8MR88	1.78e-9
Aalpina_KFK33062	SwissProt	2021-04-01	A8MR88	9.14e-9

Gene models

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