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_AA2G164400 [ AALP_AA2G164400]	2	22311951	22313125	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_KFK41719 KFK41719	Low	No	445	OG0027220		Get ORF Coding potential... Type: noncoding Potential: -0.091 Folding energies... MFEI: -28.742 AMFE: -0.612 GC content %: 46.966
Aalpina_KFK41720 KFK41720	Low	No	512	OG0027220		Get ORF Coding potential... Type: noncoding Potential: -0.139 Folding energies... MFEI: -26.777 AMFE: -0.586 GC content %: 45.703

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_KFK41719	SwissProt	2021-04-01	Q9LQU7	1.29e-18
Aalpina_KFK41720	SwissProt	2021-04-01	Q9LQU7	2.96e-20

Gene models

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