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
Mtruncatula_MTR_1g010050 [ MTR_1g010050]	1	1714470	1715277	v4	Medicago truncatula (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
Mtruncatula_KEH39788 KEH39788	Low	No	294	OG0051873		Get ORF Coding potential... Type: noncoding Potential: -0.095 Folding energies... MFEI: -20.918 AMFE: -0.559 GC content %: 37.415
Mtruncatula_KEH39789 KEH39789	High	No	249	OG0051873		Get ORF Coding potential... Type: noncoding Potential: -0.203 Folding energies... MFEI: -19.518 AMFE: -0.540 GC content %: 36.145

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
Mtruncatula_KEH39788	SwissProt	2021-04-01	A2X0N9	2.04e-4

Gene models

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