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
Sbicolor_Sobic.001G001800 Sobic.001G001800	Chr01	154632	157785	Phytozome	v3.1	Sorghum_bicolor	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
Sbicolor_Sobic.001G001800.1 Sobic.001G001800.1 PAC:32752990	Low	Yes	924		Get ORF Coding potential... Type: noncoding Potential: -0.608 Folding energies... MFEI: -35.963 AMFE: -0.737 GC content %: 48.810
Sbicolor_Sobic.001G001800.2 Sobic.001G001800.2 PAC:32752989	Low	Yes	1153		Get ORF Coding potential... Type: noncoding Potential: -0.660 Folding energies... MFEI: -33.755 AMFE: -0.688 GC content %: 49.089

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
Sbicolor_Sobic.001G001800.1	RepBase (RepeatMasker)	2014-01-31	EnSpm-3_TA

Gene models

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