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_AA8G047800 [ AALP_AA8G047800]	8	2935930	2936755	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_KFK24958 KFK24958	Low	No	440	OG0027185		Get ORF Coding potential... Type: noncoding Potential: -0.527 Folding energies... MFEI: -22.295 AMFE: -0.587 GC content %: 37.955
Aalpina_KFK24959 KFK24959	Low	No	458	OG0027185		Get ORF Coding potential... Type: noncoding Potential: -0.533 Folding energies... MFEI: -21.594 AMFE: -0.568 GC content %: 37.991

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_KFK24958	SwissProt	2021-04-01	Q94BT9	7.06e-5
Aalpina_KFK24959	SwissProt	2021-04-01	F4JZL7	1.03e-4

Gene models

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