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_AAs45999U000800 [ AALP_AAs45999U000800]	KL979243	63137	64571	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_KFK23424 KFK23424	High	No	264	OG0027175		Get ORF Coding potential... Type: noncoding Potential: -0.970 Folding energies... MFEI: -26.364 AMFE: -0.585 GC content %: 45.076
Aalpina_KFK23425 KFK23425	Low	No	650	OG0027175		Get ORF Coding potential... Type: noncoding Potential: -1.138 Folding energies... MFEI: -25.108 AMFE: -0.621 GC content %: 40.462

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_KFK23425	RepBase (RepeatMasker)	2014-01-31	rRNA

Gene models

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