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_5AL_851185BCE Traes_5AL_851185BCE	ta_iwgsc_5al_v1_2737391	928	2777	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_5AL_851185BCE.1 Traes_5AL_851185BCE.1 PAC:31823840	High	No	276		Get ORF Coding potential... Type: noncoding Potential: -0.663 Folding energies... MFEI: -23.986 AMFE: -0.502 GC content %: 47.826
Taestivum_Traes_5AL_851185BCE.2 Traes_5AL_851185BCE.2 PAC:31823841	Low	Yes	862		Get ORF Coding potential... Type: noncoding Potential: -0.955 Folding energies... MFEI: -30.638 AMFE: -0.660 GC content %: 46.404
Taestivum_Traes_5AL_851185BCE.3 Traes_5AL_851185BCE.3 PAC:31823842	High	No	826		Get ORF Coding potential... Type: noncoding Potential: -0.947 Folding energies... MFEI: -27.966 AMFE: -0.621 GC content %: 45.036

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_5AL_851185BCE.2	Rfam	11.0	MIR1122	2.6e-7

Gene models

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