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_AET4Gv20067600 [ AET4Gv20067600]	4D	17052660	17062990	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_AET4Gv20067600.46 AET4Gv20067600.46	High	No	1024	OG0009974		Get ORF Coding potential... Type: noncoding Potential: -1.420 Folding energies... MFEI: -28.760 AMFE: -0.660 GC content %: 43.555
Atauschii_AET4Gv20067600.47 AET4Gv20067600.47	Low	No	820	OG0009974		Get ORF Coding potential... Type: noncoding Potential: -1.078 Folding energies... MFEI: -27.573 AMFE: -0.642 GC content %: 42.927
Atauschii_AET4Gv20067600.48 AET4Gv20067600.48	High	No	499	OG0009974		Get ORF Coding potential... Type: noncoding Potential: -1.406 Folding energies... MFEI: -26.433 AMFE: -0.581 GC content %: 45.491
Atauschii_AET4Gv20067600.49 AET4Gv20067600.49	High	No	401	OG0009974		Get ORF Coding potential... Type: noncoding Potential: -1.089 Folding energies... MFEI: -19.227 AMFE: -0.535 GC content %: 35.910

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_AET4Gv20067600.47	RepBase (RepeatMasker)	2014-01-31	DNA/TcMar-Stowaway

Gene models

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