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_6AA5BACC7 Traes_7AL_6AA5BACC7	ta_iwgsc_7al_v1_4530703	16	2787	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_7AL_6AA5BACC7.4 Traes_7AL_6AA5BACC7.4 PAC:31841290	Low	No	763		Get ORF Coding potential... Type: noncoding Potential: -0.910 Folding energies... MFEI: -27.064 AMFE: -0.666 GC content %: 40.629
Taestivum_Traes_7AL_6AA5BACC7.5 Traes_7AL_6AA5BACC7.5 PAC:31841291	Low	No	690		Get ORF Coding potential... Type: noncoding Potential: -0.193 Folding energies... MFEI: -28.391 AMFE: -0.647 GC content %: 43.913

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_6AA5BACC7.5	RepBase (RepeatMasker)	2014-01-31	RTE-1_TD

Gene models

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