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_E877B936C Traes_2AL_E877B936C	ta_iwgsc_2al_v1_6396418	5347	16061	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_E877B936C.14 Traes_2AL_E877B936C.14 PAC:31829691	Low	No	964		Get ORF Coding potential... Type: noncoding Potential: -0.100 Folding energies... MFEI: -26.027 AMFE: -0.608 GC content %: 42.842
Taestivum_Traes_2AL_E877B936C.16 Traes_2AL_E877B936C.16 PAC:31829692	High	No	548		Get ORF Coding potential... Type: noncoding Potential: -0.994 Folding energies... MFEI: -25.985 AMFE: -0.611 GC content %: 42.518

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_E877B936C.14	RepBase (RepeatMasker)	2014-01-31	HADES_TA

Gene models

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