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_Bradi2g07278 Bradi2g07278	Bd2	5600610	5603190	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_Bradi2g07278.1 Bradi2g07278.1 PAC:32772697	Low	Yes	2581		Get ORF Coding potential... Type: noncoding Potential: -1.188 Folding energies... MFEI: -29.136 AMFE: -0.684 GC content %: 42.580
Bdistachyon_Bradi2g07278.2 Bradi2g07278.2 PAC:32772698	Low	Yes	2458		Get ORF Coding potential... Type: noncoding Potential: -1.184 Folding energies... MFEI: -29.268 AMFE: -0.682 GC content %: 42.921

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_Bradi2g07278.1	Rfam	11.0	MIR159	2.5e-31
Bdistachyon_Bradi2g07278.2	Rfam	11.0	MIR159	2.4e-31

Gene models

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