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_79D13FC93 Traes_2AL_79D13FC93	ta_iwgsc_2al_v1_6084879	3	1477	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_2AL_79D13FC93.1 Traes_2AL_79D13FC93.1 PAC:31804343	Low	No	1475		Get ORF Coding potential... Type: noncoding Potential: -1.280 Folding energies... MFEI: -24.637 AMFE: -0.668 GC content %: 36.881
Taestivum_Traes_2AL_79D13FC93.2 Traes_2AL_79D13FC93.2 PAC:31804342	Low	No	988		Get ORF Coding potential... Type: noncoding Potential: -0.865 Folding energies... MFEI: -25.192 AMFE: -0.648 GC content %: 38.866

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_79D13FC93.1	RepBase (RepeatMasker)	2014-01-31	DNA-2-N2_TA
Taestivum_Traes_2AL_79D13FC93.2	RepBase (RepeatMasker)	2014-01-31	DNA-2-N2_TA

Gene models

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