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_AET3Gv20948800 [ AET3Gv20948800]	3D	542696780	542702502	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_AET3Gv20948800.17 AET3Gv20948800.17	Low	No	1499	OG0003736		Get ORF Coding potential... Type: noncoding Potential: -0.319 Folding energies... MFEI: -28.085 AMFE: -0.647 GC content %: 43.429
Atauschii_AET3Gv20948800.19 AET3Gv20948800.19	High	No	815	OG0003736		Get ORF Coding potential... Type: noncoding Potential: -0.798 Folding energies... MFEI: -28.074 AMFE: -0.641 GC content %: 43.804
Atauschii_AET3Gv20948800.20 AET3Gv20948800.20	High	No	573	OG0003736		Get ORF Coding potential... Type: noncoding Potential: -1.017 Folding energies... MFEI: -28.063 AMFE: -0.638 GC content %: 43.979
Atauschii_AET3Gv20948800.21 AET3Gv20948800.21	High	No	405	OG0003736		Get ORF Coding potential... Type: noncoding Potential: -0.919 Folding energies... MFEI: -25.531 AMFE: -0.574 GC content %: 44.444
Atauschii_AET3Gv20948800.22 AET3Gv20948800.22	High	No	539	OG0003736		Get ORF Coding potential... Type: noncoding Potential: -0.895 Folding energies... MFEI: -26.085 AMFE: -0.611 GC content %: 42.672
Atauschii_AET3Gv20948800.5 AET3Gv20948800.5	High	No	5639	OG0003736		Get ORF Coding potential... Type: noncoding Potential: -0.484 Folding energies... MFEI: -27.258 AMFE: -0.671 GC content %: 40.610
Atauschii_AET3Gv20948800.6 AET3Gv20948800.6	Low	No	1823	OG0003736		Get ORF Coding potential... Type: noncoding Potential: -0.344 Folding energies... MFEI: -28.025 AMFE: -0.642 GC content %: 43.664

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_AET3Gv20948800.17	SwissProt	2021-04-01	Q8EG65	5.89e-7
Atauschii_AET3Gv20948800.6	SwissProt	2021-04-01	Q8EG65	7.86e-7

Gene models

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