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
Zmays_Zm00001d022000 [ Zm00001d022000]	7	167788870	167813313	v4	Zea mays (Phytozome 13)	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
Zmays_Zm00001d022000_T020 Zm00001d022000_T020	Low	No	4384	[1]		Get ORF Coding potential... Type: noncoding Potential: -1.147 Folding energies... MFEI: -28.698 AMFE: -0.660 GC content %: 43.476
Zmays_Zm00001d022000_T051 Zm00001d022000_T051	High	No	2141	[2]		Get ORF Coding potential... Type: noncoding Potential: -1.016 Folding energies... MFEI: -30.168 AMFE: -0.625 GC content %: 48.248
Zmays_Zm00001d022000_T052 Zm00001d022000_T052	High	No	2244	[3]		Get ORF Coding potential... Type: noncoding Potential: -1.040 Folding energies... MFEI: -29.505 AMFE: -0.632 GC content %: 46.658
Zmays_Zm00001d022000_T055 Zm00001d022000_T055	High	No	702	[4]		Get ORF Coding potential... Type: noncoding Potential: -1.444 Folding energies... MFEI: -30.271 AMFE: -0.564 GC content %: 53.704
Zmays_Zm00001d022000_T059 Zm00001d022000_T059	Low	No	718	[5]		Get ORF Coding potential... Type: noncoding Potential: -0.672 Folding energies... MFEI: -26.825 AMFE: -0.611 GC content %: 43.872

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
Zmays_Zm00001d022000_T059	SwissProt	2021-04-01	Q8LCV1	6.84e-4
Zmays_Zm00001d022000_T020	RepBase (RepeatMasker)	0000-00-00	DNA/hAT-Ac

Gene models

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