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_AET3Gv20453100 [ AET3Gv20453100]	3D	221281321	221296868	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_AET3Gv20453100.27 AET3Gv20453100.27	Low	No	885	OG0072683		Get ORF Coding potential... Type: noncoding Potential: -1.249 Folding energies... MFEI: -30.147 AMFE: -0.689 GC content %: 43.729
Atauschii_AET3Gv20453100.28 AET3Gv20453100.28	High	No	259	OG0072684		Get ORF Coding potential... Type: noncoding Potential: -1.283 Folding energies... MFEI: -25.560 AMFE: -0.607 GC content %: 42.085
Atauschii_AET3Gv20453100.29 AET3Gv20453100.29	High	No	421	OG0072685		Get ORF Coding potential... Type: noncoding Potential: -1.013 Folding energies... MFEI: -27.292 AMFE: -0.463 GC content %: 58.907

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_AET3Gv20453100.27	RepBase (RepeatMasker)	2014-01-31	DNA/MULE-MuDR

Gene models

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