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
Vvinifera_GSVIVG01032245001 GSVIVG01032245001	chr11	13761645	13763896	Phytozome	Genoscope.12X	Vitis_vinifera	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
Vvinifera_GSVIVT01032245001 GSVIVT01032245001 PAC:17838230	Low	No	2122		Get ORF Coding potential... Type: noncoding Potential: -0.777 Folding energies... MFEI: -27.436 AMFE: -0.642 GC content %: 42.743

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
Vvinifera_GSVIVT01032245001	SwissProt	2015-06-01	Q9SS87	3.0e-33

Gene models

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