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_AET4Gv20160800 [ AET4Gv20160800]	4D	53166178	53168030	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_AET4Gv20160800.2 AET4Gv20160800.2	High	No	648	OG0074445		Get ORF Coding potential... Type: noncoding Potential: -0.956 Folding energies... MFEI: -32.654 AMFE: -0.583 GC content %: 56.019
Atauschii_AET4Gv20160800.3 AET4Gv20160800.3	Low	Yes	768	OG0074446		Get ORF Coding potential... Type: noncoding Potential: -1.336 Folding energies... MFEI: -32.357 AMFE: -0.672 GC content %: 48.177

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_AET4Gv20160800.3	Rfam	14.6	MIR1122	1.1e-8

Gene models

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