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_AET4Gv20128500 [ AET4Gv20128500]	4D	39226829	39234229	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_AET4Gv20128500.10 AET4Gv20128500.10	High	No	439	OG0074364		Get ORF Coding potential... Type: noncoding Potential: -0.749 Folding energies... MFEI: -23.440 AMFE: -0.565 GC content %: 41.458
Atauschii_AET4Gv20128500.3 AET4Gv20128500.3	Low	No	618	OG0074365		Get ORF Coding potential... Type: noncoding Potential: -0.850 Folding energies... MFEI: -28.673 AMFE: -0.502 GC content %: 57.120
Atauschii_AET4Gv20128500.5 AET4Gv20128500.5	High	No	443	OG0074366		Get ORF Coding potential... Type: noncoding Potential: -0.686 Folding energies... MFEI: -24.786 AMFE: -0.572 GC content %: 43.341
Atauschii_AET4Gv20128500.6 AET4Gv20128500.6	High	No	365	OG0025257		Get ORF Coding potential... Type: noncoding Potential: -0.898 Folding energies... MFEI: -25.890 AMFE: -0.591 GC content %: 43.836
Atauschii_AET4Gv20128500.7 AET4Gv20128500.7	High	No	451	OG0025257		Get ORF Coding potential... Type: noncoding Potential: -1.051 Folding energies... MFEI: -26.075 AMFE: -0.613 GC content %: 42.572
Atauschii_AET4Gv20128500.8 AET4Gv20128500.8	High	No	263	OG0074367		Get ORF Coding potential... Type: noncoding Potential: -1.105 Folding energies... MFEI: -30.000 AMFE: -0.556 GC content %: 53.992

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_AET4Gv20128500.3	SwissProt	2021-04-01	Q65XS5	1.79e-6

Gene models

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