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
Sbicolor_Sobic.008G071550 [ Sobic.008G071550]	Chr08	9629678	9631411	v3.1.1	Sorghum bicolor (Phytozome 13)	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	Orthologous group	Sequence	Details
Sbicolor_Sobic.008G071550.1 Sobic.008G071550.1	Low	No	627	OG0059600		Get ORF Coding potential... Type: noncoding Potential: -1.080 Folding energies... MFEI: -28.006 AMFE: -0.591 GC content %: 47.368
Sbicolor_Sobic.008G071550.2 Sobic.008G071550.2	Low	No	618	OG0059600		Get ORF Coding potential... Type: noncoding Potential: -1.059 Folding energies... MFEI: -27.864 AMFE: -0.586 GC content %: 47.573

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.008G071550.1	RepBase (RepeatMasker)	2014-01-31	DNA/CMC-EnSpm; DNA/PIF-Harbinger
Sbicolor_Sobic.008G071550.2	RepBase (RepeatMasker)	2014-01-31	DNA/CMC-EnSpm; DNA/PIF-Harbinger

Gene models

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