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_AET4Gv20508800 [ AET4Gv20508800]	4D	349309408	349317143	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_AET4Gv20508800.6 AET4Gv20508800.6	Low	No	299	OG0074999		Get ORF Coding potential... Type: noncoding Potential: -1.127 Folding energies... MFEI: -29.365 AMFE: -0.632 GC content %: 46.488
Atauschii_AET4Gv20508800.7 AET4Gv20508800.7	High	No	354	OG0025359		Get ORF Coding potential... Type: noncoding Potential: -1.004 Folding energies... MFEI: -23.136 AMFE: -0.522 GC content %: 44.350

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_AET4Gv20508800.6	RepBase (RepeatMasker)	2014-01-31	SINE/tRNA

Gene models

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