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_2AL_83950B6A9 Traes_2AL_83950B6A9	ta_iwgsc_2al_v1_6390862	6676	16711	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_2AL_83950B6A9.4 Traes_2AL_83950B6A9.4 PAC:31923312	Low	No	1185		Get ORF Coding potential... Type: noncoding Potential: -1.020 Folding energies... MFEI: -27.156 AMFE: -0.588 GC content %: 46.160
Taestivum_Traes_2AL_83950B6A9.6 Traes_2AL_83950B6A9.6 PAC:31923313	High	No	2104		Get ORF Coding potential... Type: noncoding Potential: -1.177 Folding energies... MFEI: -28.950 AMFE: -0.668 GC content %: 43.346

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_2AL_83950B6A9.4	RepBase (RepeatMasker)	2014-01-31	Helitron-2_SBi

Gene models

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