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_AET1Gv21047000 [ AET1Gv21047000]	1D	500844277	500847465	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_AET1Gv21047000.1 AET1Gv21047000.1	High	No	655	OG0069536		Get ORF Coding potential... Type: noncoding Potential: -1.360 Folding energies... MFEI: -29.802 AMFE: -0.668 GC content %: 44.580
Atauschii_AET1Gv21047000.11 AET1Gv21047000.11	High	No	1071	OG0002856		Get ORF Coding potential... Type: noncoding Potential: -0.932 Folding energies... MFEI: -32.605 AMFE: -0.599 GC content %: 54.435
Atauschii_AET1Gv21047000.15 AET1Gv21047000.15	High	No	879	OG0069537		Get ORF Coding potential... Type: noncoding Potential: -0.994 Folding energies... MFEI: -22.071 AMFE: -0.450 GC content %: 49.033
Atauschii_AET1Gv21047000.2 AET1Gv21047000.2	High	No	1251	OG0069538		Get ORF Coding potential... Type: noncoding Potential: -0.922 Folding energies... MFEI: -30.584 AMFE: -0.653 GC content %: 46.843
Atauschii_AET1Gv21047000.7 AET1Gv21047000.7	Low	No	889	OG0002856		Get ORF Coding potential... Type: noncoding Potential: -0.655 Folding energies... MFEI: -33.285 AMFE: -0.643 GC content %: 51.744

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_AET1Gv21047000.7	SwissProt	2021-04-01	P91621	2.34e-4

Gene models

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