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_5BS_537978D02 Traes_5BS_537978D02	ta_iwgsc_5bs_v1_2267295	5284	5585	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_5BS_537978D02.1 Traes_5BS_537978D02.1 PAC:31736428	Low	No	230		Get ORF Coding potential... Type: noncoding Potential: -1.366 Folding energies... MFEI: -39.435 AMFE: -0.692 GC content %: 56.957
Taestivum_Traes_5BS_537978D02.2 Traes_5BS_537978D02.2 PAC:31736429	Low	No	240		Get ORF Coding potential... Type: noncoding Potential: -0.953 Folding energies... MFEI: -33.208 AMFE: -0.638 GC content %: 52.083

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_5BS_537978D02.1	RepBase (RepeatMasker)	2014-01-31	LINE1-21_SBi
Taestivum_Traes_5BS_537978D02.2	RepBase (RepeatMasker)	2014-01-31	LINE1-21_SBi

Gene models

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