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_AET3Gv20667200 [ AET3Gv20667200]	3D	393853577	393855743	v4	Aegilops tauschii (Ensembl Plants 51)	Coding? No

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_AET3Gv20667200.1 AET3Gv20667200.1	High	No	747	OG0001561		Get ORF Coding potential... Type: noncoding Potential: -0.989 Folding energies... MFEI: -38.072 AMFE: -0.692 GC content %: 55.020
Atauschii_AET3Gv20667200.2 AET3Gv20667200.2	High	No	463	OG0073068		Get ORF Coding potential... Type: noncoding Potential: -1.171 Folding energies... MFEI: -21.555 AMFE: -0.542 GC content %: 39.741
Atauschii_AET3Gv20667200.3 AET3Gv20667200.3	Low	No	772	OG0073069		Get ORF Coding potential... Type: noncoding Potential: -0.940 Folding energies... MFEI: -38.044 AMFE: -0.688 GC content %: 55.311
Atauschii_AET3Gv20667200.4 AET3Gv20667200.4	Low	No	304	OG0001561		Get ORF Coding potential... Type: noncoding Potential: -0.729 Folding energies... MFEI: -51.612 AMFE: -0.730 GC content %: 70.724

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_AET3Gv20667200.3	SwissProt	2021-04-01	Q93ZJ3	1.0e-3
Atauschii_AET3Gv20667200.4	SwissProt	2021-04-01	Q93ZJ3	3.22e-4

Gene models

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