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_AAs51344U000100 [ AALP_AAs51344U000100]	KL994745	156	1108	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_KFK21899 KFK21899	Low	No	454	OG0007175		Get ORF Coding potential... Type: noncoding Potential: -0.473 Folding energies... MFEI: -20.088 AMFE: -0.485 GC content %: 41.410
Aalpina_KFK21900 KFK21900	Low	No	436	OG0007175		Get ORF Coding potential... Type: noncoding Potential: -0.493 Folding energies... MFEI: -21.124 AMFE: -0.506 GC content %: 41.743

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_KFK21899	SwissProt	2021-04-01	Q8L773	3.92e-7
Aalpina_KFK21900	SwissProt	2021-04-01	Q8L773	8.26e-7

Gene models

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