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_AET4Gv20500500 [ AET4Gv20500500]	4D	343448570	343453153	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_AET4Gv20500500.1 AET4Gv20500500.1	High	No	269	OG0074978		Get ORF Coding potential... Type: noncoding Potential: -0.782 Folding energies... MFEI: -25.576 AMFE: -0.485 GC content %: 52.788
Atauschii_AET4Gv20500500.5 AET4Gv20500500.5	High	No	562	OG0074979		Get ORF Coding potential... Type: noncoding Potential: -1.026 Folding energies... MFEI: -23.861 AMFE: -0.630 GC content %: 37.900
Atauschii_AET4Gv20500500.7 AET4Gv20500500.7	Low	No	645	OG0025355		Get ORF Coding potential... Type: noncoding Potential: -0.038 Folding energies... MFEI: -32.202 AMFE: -0.661 GC content %: 48.682

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_AET4Gv20500500.7	SwissProt	2021-04-01	Q8L649	1.86e-35

Gene models

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