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_6DS_086988A37 Traes_6DS_086988A37	ta_iwgsc_6ds_v1_2125648	4	9921	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_6DS_086988A37.4 Traes_6DS_086988A37.4 PAC:31746554	Low	No	524		Get ORF Coding potential... Type: noncoding Potential: -0.710 Folding energies... MFEI: -21.985 AMFE: -0.536 GC content %: 41.031
Taestivum_Traes_6DS_086988A37.5 Traes_6DS_086988A37.5 PAC:31746555	Low	No	924		Get ORF Coding potential... Type: noncoding Potential: -1.257 Folding energies... MFEI: -24.578 AMFE: -0.670 GC content %: 36.688

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_6DS_086988A37.5	RepBase (RepeatMasker)	2014-01-31	HARB-N6_ZM

Gene models

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