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_AET2Gv20558700 [ AET2Gv20558700]	2D	295038275	295051003	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_AET2Gv20558700.1 AET2Gv20558700.1	Low	No	1044	OG0003688		Get ORF Coding potential... Type: noncoding Potential: -0.947 Folding energies... MFEI: -29.875 AMFE: -0.610 GC content %: 48.946
Atauschii_AET2Gv20558700.2 AET2Gv20558700.2	Low	No	573	OG0003688		Get ORF Coding potential... Type: noncoding Potential: -0.546 Folding energies... MFEI: -26.213 AMFE: -0.560 GC content %: 46.771
Atauschii_AET2Gv20558700.5 AET2Gv20558700.5	Low	No	385	OG0024672		Get ORF Coding potential... Type: noncoding Potential: -0.370 Folding energies... MFEI: -21.117 AMFE: -0.511 GC content %: 41.299
Atauschii_AET2Gv20558700.6 AET2Gv20558700.6	Low	No	2773	OG0006836		Get ORF Coding potential... Type: coding Potential: 0.050 Folding energies... MFEI: -25.997 AMFE: -0.631 GC content %: 41.219
Atauschii_AET2Gv20558700.7 AET2Gv20558700.7	High	No	597	OG0024673		Get ORF Coding potential... Type: noncoding Potential: -0.895 Folding energies... MFEI: -24.673 AMFE: -0.592 GC content %: 41.709
Atauschii_AET2Gv20558700.8 AET2Gv20558700.8	High	No	787	OG0003688		Get ORF Coding potential... Type: noncoding Potential: -1.210 Folding energies... MFEI: -27.738 AMFE: -0.648 GC content %: 42.821

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_AET2Gv20558700.5	SwissProt	2021-04-01	Q5RAM7	1.67e-9
Atauschii_AET2Gv20558700.1	SwissProt	2021-04-01	Q3SZE2	7.25e-9
Atauschii_AET2Gv20558700.2	SwissProt	2021-04-01	Q3SZE2	1.54e-5

Gene models

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