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_AET2Gv20897300 [ AET2Gv20897300]	2D	514306211	514314891	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_AET2Gv20897300.10 AET2Gv20897300.10	High	No	1220	OG0016063		Get ORF Coding potential... Type: noncoding Potential: -1.174 Folding energies... MFEI: -26.230 AMFE: -0.627 GC content %: 41.803
Atauschii_AET2Gv20897300.25 AET2Gv20897300.25	Low	No	570	OG0071123		Get ORF Coding potential... Type: noncoding Potential: -1.048 Folding energies... MFEI: -30.053 AMFE: -0.661 GC content %: 45.439
Atauschii_AET2Gv20897300.3 AET2Gv20897300.3	High	No	257	OG0071124		Get ORF Coding potential... Type: noncoding Potential: -0.750 Folding energies... MFEI: -34.241 AMFE: -0.575 GC content %: 59.533
Atauschii_AET2Gv20897300.4 AET2Gv20897300.4	High	No	760	OG0071125		Get ORF Coding potential... Type: noncoding Potential: -1.010 Folding energies... MFEI: -29.500 AMFE: -0.632 GC content %: 46.711
Atauschii_AET2Gv20897300.6 AET2Gv20897300.6	High	No	1447	OG0071126		Get ORF Coding potential... Type: noncoding Potential: -1.093 Folding energies... MFEI: -28.300 AMFE: -0.676 GC content %: 41.880
Atauschii_AET2Gv20897300.7 AET2Gv20897300.7	High	No	2628	OG0016063		Get ORF Coding potential... Type: noncoding Potential: -1.285 Folding energies... MFEI: -27.481 AMFE: -0.685 GC content %: 40.145

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_AET2Gv20897300.25	SwissProt	2021-04-01	Q9FYJ6	2.65e-10

Gene models

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