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_AET2Gv21140100 [ AET2Gv21140100]	2D	607479031	607482345	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_AET2Gv21140100.12 AET2Gv21140100.12	Low	No	261	OG0009850		Get ORF Coding potential... Type: noncoding Potential: -0.780 Folding energies... MFEI: -34.981 AMFE: -0.681 GC content %: 51.341
Atauschii_AET2Gv21140100.13 AET2Gv21140100.13	High	No	1867	OG0009850		Get ORF Coding potential... Type: noncoding Potential: -1.150 Folding energies... MFEI: -30.573 AMFE: -0.663 GC content %: 46.117
Atauschii_AET2Gv21140100.14 AET2Gv21140100.14	High	No	366	OG0071561		Get ORF Coding potential... Type: noncoding Potential: -1.070 Folding energies... MFEI: -20.929 AMFE: -0.302 GC content %: 69.399
Atauschii_AET2Gv21140100.5 AET2Gv21140100.5	Low	No	2684	OG0009850		Get ORF Coding potential... Type: noncoding Potential: -0.268 Folding energies... MFEI: -29.601 AMFE: -0.710 GC content %: 41.692
Atauschii_AET2Gv21140100.7 AET2Gv21140100.7	Low	No	1132	OG0009850		Get ORF Coding potential... Type: noncoding Potential: -0.183 Folding energies... MFEI: -38.843 AMFE: -0.667 GC content %: 58.216

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_AET2Gv21140100.5	SwissProt	2021-04-01	Q10FF9	2.86e-23
Atauschii_AET2Gv21140100.7	SwissProt	2021-04-01	Q10FF9	3.33e-24
Atauschii_AET2Gv21140100.12	SwissProt	2021-04-01	Q9FIK7	2.91e-8

Gene models

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