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
Bdistachyon_Bradi3g43857 Bradi3g43857	Bd3	45289837	45294824	Phytozome	v3.1	Brachypodium_distachyon	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
Bdistachyon_Bradi3g43857.1 Bradi3g43857.1 PAC:32812679	High	No	945		Get ORF Coding potential... Type: noncoding Potential: -1.085 Folding energies... MFEI: -36.381 AMFE: -0.647 GC content %: 56.190
Bdistachyon_Bradi3g43857.2 Bradi3g43857.2 PAC:32812677	Low	No	2606		Get ORF Coding potential... Type: noncoding Potential: -1.170 Folding energies... MFEI: -27.379 AMFE: -0.666 GC content %: 41.136
Bdistachyon_Bradi3g43857.3 Bradi3g43857.3 PAC:32812678	High	No	969		Get ORF Coding potential... Type: noncoding Potential: -0.663 Folding energies... MFEI: -35.294 AMFE: -0.581 GC content %: 60.784

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
Bdistachyon_Bradi3g43857.2	RepBase (RepeatMasker)	2014-01-31	EnSpm-34_SBi

Gene models

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