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_2DL_7C079C6E6 Traes_2DL_7C079C6E6	ta_iwgsc_2dl_v1_9908256	3335	9666	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_2DL_7C079C6E6.1 Traes_2DL_7C079C6E6.1 PAC:31750983	High	No	698		Get ORF Coding potential... Type: noncoding Potential: -0.996 Folding energies... MFEI: -25.559 AMFE: -0.609 GC content %: 41.977
Taestivum_Traes_2DL_7C079C6E6.2 Traes_2DL_7C079C6E6.2 PAC:31750984	High	No	1222		Get ORF Coding potential... Type: noncoding Potential: -1.245 Folding energies... MFEI: -29.689 AMFE: -0.681 GC content %: 43.617
Taestivum_Traes_2DL_7C079C6E6.3 Traes_2DL_7C079C6E6.3 PAC:31750985	Low	Yes	1747		Get ORF Coding potential... Type: noncoding Potential: -1.213 Folding energies... MFEI: -28.695 AMFE: -0.682 GC content %: 42.072
Taestivum_Traes_2DL_7C079C6E6.4 Traes_2DL_7C079C6E6.4 PAC:31750987	High	No	987		Get ORF Coding potential... Type: noncoding Potential: -1.131 Folding energies... MFEI: -29.037 AMFE: -0.637 GC content %: 45.593
Taestivum_Traes_2DL_7C079C6E6.5 Traes_2DL_7C079C6E6.5 PAC:31750986	High	No	824		Get ORF Coding potential... Type: noncoding Potential: -1.205 Folding energies... MFEI: -30.413 AMFE: -0.639 GC content %: 47.573
Taestivum_Traes_2DL_7C079C6E6.6 Traes_2DL_7C079C6E6.6 PAC:31750988	High	No	960		Get ORF Coding potential... Type: noncoding Potential: -1.232 Folding energies... MFEI: -25.344 AMFE: -0.637 GC content %: 39.792

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_2DL_7C079C6E6.3	Rfam	11.0	MIR1122	1.1e-8

Gene models

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