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_AET6Gv20093900 [ AET6Gv20093900]	6D	18573658	18574668	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_AET6Gv20093900.2 AET6Gv20093900.2	Low	No	339	OG0078123		Get ORF Coding potential... Type: noncoding Potential: -0.850 Folding energies... MFEI: -28.083 AMFE: -0.563 GC content %: 49.853
Atauschii_AET6Gv20093900.3 AET6Gv20093900.3	High	No	243	OG0078124		Get ORF Coding potential... Type: noncoding Potential: -1.127 Folding energies... MFEI: -26.008 AMFE: -0.510 GC content %: 51.029

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_AET6Gv20093900.2	SwissProt	2021-04-01	Q94HW2	3.17e-4
Atauschii_AET6Gv20093900.2	RepBase (RepeatMasker)	2014-01-31	LTR/Copia

Gene models

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