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	Source	Assembly	Species	Details
Zmays_GRMZM2G071360 GRMZM2G071360	10	128719727	128722933	Phytozome	6a	Zea_mays	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	Sequence	Details
Zmays_GRMZM2G071360_T02 GRMZM2G071360_T02 PAC:31001950	Low	No	2273		Get ORF Coding potential... Type: noncoding Potential: -0.594 Folding energies... MFEI: -28.517 AMFE: -0.604 GC content %: 47.206
Zmays_GRMZM2G071360_T03 GRMZM2G071360_T03 PAC:31001949	High	No	1214		Get ORF Coding potential... Type: noncoding Potential: -0.863 Folding energies... MFEI: -32.965 AMFE: -0.597 GC content %: 55.189

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_GRMZM2G071360_T02	RepBase (RepeatMasker)	2014-01-31	HARB-N5_ZM

Gene models

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