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_AET4Gv20463900 [ AET4Gv20463900]	4D	316931129	316936939	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_AET4Gv20463900.4 AET4Gv20463900.4	Low	No	2819	OG0004750		Get ORF Coding potential... Type: noncoding Potential: -0.065 Folding energies... MFEI: -30.294 AMFE: -0.633 GC content %: 47.854
Atauschii_AET4Gv20463900.5 AET4Gv20463900.5	High	No	710	OG0004750		Get ORF Coding potential... Type: noncoding Potential: -0.950 Folding energies... MFEI: -25.197 AMFE: -0.587 GC content %: 42.958
Atauschii_AET4Gv20463900.6 AET4Gv20463900.6	High	No	3531	OG0004750		Get ORF Coding potential... Type: noncoding Potential: -1.124 Folding energies... MFEI: -29.946 AMFE: -0.654 GC content %: 45.823
Atauschii_AET4Gv20463900.7 AET4Gv20463900.7	High	No	1734	OG0004750		Get ORF Coding potential... Type: noncoding Potential: -1.187 Folding energies... MFEI: -28.985 AMFE: -0.609 GC content %: 47.578
Atauschii_AET4Gv20463900.8 AET4Gv20463900.8	High	No	1196	OG0004750		Get ORF Coding potential... Type: noncoding Potential: -1.011 Folding energies... MFEI: -23.236 AMFE: -0.584 GC content %: 39.799
Atauschii_AET4Gv20463900.9 AET4Gv20463900.9	Low	No	1990	OG0004750		Get ORF Coding potential... Type: noncoding Potential: -1.075 Folding energies... MFEI: -34.427 AMFE: -0.665 GC content %: 51.759

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_AET4Gv20463900.4	SwissProt	2021-04-01	Q9LES3	1.71e-17
Atauschii_AET4Gv20463900.9	RepBase (RepeatMasker)	2014-01-31	SINE/tRNA

Gene models

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