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_AET1Gv20230600 [ AET1Gv20230600]	1D	82280642	82284645	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_AET1Gv20230600.1 AET1Gv20230600.1	High	No	769	OG0004630		Get ORF Coding potential... Type: noncoding Potential: -1.280 Folding energies... MFEI: -26.021 AMFE: -0.610 GC content %: 42.653
Atauschii_AET1Gv20230600.11 AET1Gv20230600.11	Low	No	2103	OG0004630		Get ORF Coding potential... Type: noncoding Potential: -1.341 Folding energies... MFEI: -30.071 AMFE: -0.655 GC content %: 45.934
Atauschii_AET1Gv20230600.12 AET1Gv20230600.12	High	No	2064	OG0004630		Get ORF Coding potential... Type: noncoding Potential: -1.339 Folding energies... MFEI: -30.305 AMFE: -0.657 GC content %: 46.124
Atauschii_AET1Gv20230600.13 AET1Gv20230600.13	High	No	1540	OG0004630		Get ORF Coding potential... Type: noncoding Potential: -1.326 Folding energies... MFEI: -22.812 AMFE: -0.597 GC content %: 38.182
Atauschii_AET1Gv20230600.14 AET1Gv20230600.14	High	No	1742	OG0004630		Get ORF Coding potential... Type: noncoding Potential: -1.364 Folding energies... MFEI: -31.791 AMFE: -0.652 GC content %: 48.794
Atauschii_AET1Gv20230600.2 AET1Gv20230600.2	High	No	850	OG0004630		Get ORF Coding potential... Type: noncoding Potential: -1.291 Folding energies... MFEI: -26.976 AMFE: -0.618 GC content %: 43.647

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_AET1Gv20230600.11	RepBase (RepeatMasker)	2014-01-31	LINE/L2

Gene models

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