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_7AL_DD2262335 Traes_7AL_DD2262335	ta_iwgsc_7al_v1_4444651	5178	5546	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_7AL_DD2262335.1 Traes_7AL_DD2262335.1 PAC:31780944	Low	No	294		Get ORF Coding potential... Type: noncoding Potential: -1.126 Folding energies... MFEI: -23.673 AMFE: -0.561 GC content %: 42.177
Taestivum_Traes_7AL_DD2262335.2 Traes_7AL_DD2262335.2 PAC:31780945	Low	No	288		Get ORF Coding potential... Type: noncoding Potential: -1.003 Folding energies... MFEI: -26.215 AMFE: -0.609 GC content %: 43.056

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_7AL_DD2262335.1	RepBase (RepeatMasker)	2014-01-31	LINE1-34_SBi
Taestivum_Traes_7AL_DD2262335.2	RepBase (RepeatMasker)	2014-01-31	LINE1-46_SBi

Gene models

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