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
Esalsugineum_Thhalv10002756m.g Thhalv10002756m.g	scaffold_4	7093804	7094117	Phytozome	v1.0	Eutrema_salsugineum	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	Sequence	Details
Esalsugineum_Thhalv10002756m Thhalv10002756m PAC:20196163	Low	No	314		Get ORF Coding potential... Type: noncoding Potential: -0.650 Folding energies... MFEI: -23.057 AMFE: -0.566 GC content %: 40.764

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
Esalsugineum_Thhalv10002756m	RepBase (RepeatMasker)	2014-01-31	Copia-36_BD-I

Gene models

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