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_3B_F37B8DF81 Traes_3B_F37B8DF81	ta_iwgsc_3b_v1_10707498	3129	6897	Phytozome	v2.2	Triticum_aestivum	Coding? Yes

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_3B_F37B8DF81.3 Traes_3B_F37B8DF81.3 PAC:31995164	High	No	408		Get ORF Coding potential... Type: noncoding Potential: -0.681 Folding energies... MFEI: -33.064 AMFE: -0.625 GC content %: 52.941
Taestivum_Traes_3B_F37B8DF81.4 Traes_3B_F37B8DF81.4 PAC:31995165	Low	No	291		Get ORF Coding potential... Type: noncoding Potential: -0.462 Folding energies... MFEI: -24.502 AMFE: -0.631 GC content %: 38.832

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_3B_F37B8DF81.4	RepBase (RepeatMasker)	2014-01-31	Helitron-4_FV

Gene models

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