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
Zmays5_Zm00001eb273250 Zm00001eb273250	6	98298806	98300925	v5	Zea mays (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
Zmays5_Zm00001eb273250_T001 Zm00001eb273250_T001	High	No	396	[1]		Get ORF Coding potential... Type: noncoding Potential: -0.938 Folding energies... MFEI: -35.303 AMFE: -0.557 GC content %: 63.384
Zmays5_Zm00001eb273250_T002 Zm00001eb273250_T002	Low	No	324	[2]		Get ORF Coding potential... Type: noncoding Potential: -1.090 Folding energies... MFEI: -39.753 AMFE: -0.594 GC content %: 66.975

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
Zmays5_Zm00001eb273250_T002	SwissProt	2021-04-01	Q9FFG8	4.5e-5

Gene models

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