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_FD91EC97F Traes_2AL_FD91EC97F	ta_iwgsc_2al_v1_6433990	1375	4715	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_FD91EC97F.3 Traes_2AL_FD91EC97F.3 PAC:31984088	Low	No	1137		Get ORF Coding potential... Type: noncoding Potential: -0.249 Folding energies... MFEI: -25.066 AMFE: -0.558 GC content %: 44.943
Taestivum_Traes_2AL_FD91EC97F.4 Traes_2AL_FD91EC97F.4 PAC:31984089	High	No	250		Get ORF Coding potential... Type: noncoding Potential: -0.820 Folding energies... MFEI: -10.816 AMFE: -0.318 GC content %: 34.000

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_FD91EC97F.3	RepBase (RepeatMasker)	2014-01-31	Novosib-6_CR

Gene models

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