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	Assembly	Species	Details
Atauschii_AET4Gv20596000 [ AET4Gv20596000]	4D	408780945	408785606	v4	Aegilops tauschii (Ensembl Plants 51)	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	Orthologous group	Sequence	Details
Atauschii_AET4Gv20596000.25 AET4Gv20596000.25	High	No	1167	OG0025385		Get ORF Coding potential... Type: noncoding Potential: -0.090 Folding energies... MFEI: -33.950 AMFE: -0.655 GC content %: 51.842
Atauschii_AET4Gv20596000.26 AET4Gv20596000.26	High	No	976	OG0025385		Get ORF Coding potential... Type: noncoding Potential: -0.068 Folding energies... MFEI: -33.453 AMFE: -0.653 GC content %: 51.230
Atauschii_AET4Gv20596000.28 AET4Gv20596000.28	Low	No	606	OG0075187		Get ORF Coding potential... Type: noncoding Potential: -1.167 Folding energies... MFEI: -36.766 AMFE: -0.665 GC content %: 55.281

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
Atauschii_AET4Gv20596000.28	RepBase (RepeatMasker)	2014-01-31	LINE/L1

Gene models

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