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
Taestivum_Traes_1AL_763CFE512 Traes_1AL_763CFE512	ta_iwgsc_1al_v2_1617310	1333	4737	Phytozome	v2.2	Triticum_aestivum	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
Taestivum_Traes_1AL_763CFE512.1 Traes_1AL_763CFE512.1 PAC:31865169	Low	No	794		Get ORF Coding potential... Type: noncoding Potential: -0.983 Folding energies... MFEI: -27.645 AMFE: -0.695 GC content %: 39.798
Taestivum_Traes_1AL_763CFE512.2 Traes_1AL_763CFE512.2 PAC:31865170	High	No	568		Get ORF Coding potential... Type: noncoding Potential: -1.265 Folding energies... MFEI: -25.352 AMFE: -0.661 GC content %: 38.380

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
Taestivum_Traes_1AL_763CFE512.1	RepBase (RepeatMasker)	2014-01-31	HELITRON4_OS

Gene models

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