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_AA4G000800 [ AALP_AA4G000800]	4	75663	76345	v4	Arabis alpina (Ensembl Plants 51)	Coding? Yes

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_KFK35513 KFK35513	Low	No	482	OG0027211		Get ORF Coding potential... Type: noncoding Potential: -0.728 Folding energies... MFEI: -27.282 AMFE: -0.620 GC content %: 43.983
Aalpina_KFK35515 KFK35515	Low	No	488	OG0027211		Get ORF Coding potential... Type: noncoding Potential: -1.081 Folding energies... MFEI: -27.377 AMFE: -0.639 GC content %: 42.828

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_KFK35515	SwissProt	2021-04-01	Q9QYI7	2.49e-10
Aalpina_KFK35513	SwissProt	2021-04-01	Q9QYI7	1.13e-10

Gene models

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