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_AET3Gv20643100 [ AET3Gv20643100]	3D	379056775	379060683	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_AET3Gv20643100.1 AET3Gv20643100.1	High	No	991	OG0073019		Get ORF Coding potential... Type: noncoding Potential: -1.188 Folding energies... MFEI: -20.817 AMFE: -0.614 GC content %: 33.905
Atauschii_AET3Gv20643100.11 AET3Gv20643100.11	Low	No	1508	OG0003725		Get ORF Coding potential... Type: noncoding Potential: -0.095 Folding energies... MFEI: -25.802 AMFE: -0.644 GC content %: 40.053
Atauschii_AET3Gv20643100.12 AET3Gv20643100.12	Low	No	1377	OG0003725		Get ORF Coding potential... Type: noncoding Potential: -0.099 Folding energies... MFEI: -25.904 AMFE: -0.632 GC content %: 40.959
Atauschii_AET3Gv20643100.18 AET3Gv20643100.18	High	No	1509	OG0003725		Get ORF Coding potential... Type: noncoding Potential: -0.966 Folding energies... MFEI: -26.017 AMFE: -0.507 GC content %: 51.292

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_AET3Gv20643100.11	SwissProt	2021-04-01	Q944S2	6.77e-17
Atauschii_AET3Gv20643100.12	SwissProt	2021-04-01	Q944S2	1.12e-16

Gene models

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