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_AET2Gv21170500 [ AET2Gv21170500]	2D	616641068	616752335	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_AET2Gv21170500.1 AET2Gv21170500.1	High	No	696	OG0071611		Get ORF Coding potential... Type: noncoding Potential: -0.836 Folding energies... MFEI: -33.836 AMFE: -0.613 GC content %: 55.172
Atauschii_AET2Gv21170500.3 AET2Gv21170500.3	High	No	747	OG0024851		Get ORF Coding potential... Type: noncoding Potential: -0.845 Folding energies... MFEI: -33.588 AMFE: -0.627 GC content %: 53.548
Atauschii_AET2Gv21170500.4 AET2Gv21170500.4	High	No	678	OG0071612		Get ORF Coding potential... Type: noncoding Potential: -1.109 Folding energies... MFEI: -36.032 AMFE: -0.605 GC content %: 59.587
Atauschii_AET2Gv21170500.5 AET2Gv21170500.5	High	No	1258	OG0071613		Get ORF Coding potential... Type: noncoding Potential: -0.712 Folding energies... MFEI: -30.851 AMFE: -0.614 GC content %: 50.238
Atauschii_AET2Gv21170500.6 AET2Gv21170500.6	High	No	342	OG0071614		Get ORF Coding potential... Type: noncoding Potential: -0.835 Folding energies... MFEI: -37.895 AMFE: -0.629 GC content %: 60.234
Atauschii_AET2Gv21170500.7 AET2Gv21170500.7	Low	No	1855	OG0000175		Get ORF Coding potential... Type: noncoding Potential: -1.017 Folding energies... MFEI: -34.361 AMFE: -0.650 GC content %: 52.830
Atauschii_AET2Gv21170500.8 AET2Gv21170500.8	High	No	886	OG0000175		Get ORF Coding potential... Type: noncoding Potential: -0.882 Folding energies... MFEI: -32.517 AMFE: -0.618 GC content %: 52.596
Atauschii_AET2Gv21170500.9 AET2Gv21170500.9	High	No	651	OG0000175		Get ORF Coding potential... Type: noncoding Potential: -0.815 Folding energies... MFEI: -34.240 AMFE: -0.628 GC content %: 54.531

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_AET2Gv21170500.7	RepBase (RepeatMasker)	2014-01-31	LINE/L1; LTR/Copia

Gene models

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