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_AET5Gv20943200 [ AET5Gv20943200]	5D	490198316	490203730	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_AET5Gv20943200.1 AET5Gv20943200.1	High	No	334	OG0077480		Get ORF Coding potential... Type: noncoding Potential: -0.917 Folding energies... MFEI: -26.198 AMFE: -0.663 GC content %: 39.521
Atauschii_AET5Gv20943200.4 AET5Gv20943200.4	Low	No	211	OG0025702		Get ORF Coding potential... Type: noncoding Potential: -0.837 Folding energies... MFEI: -29.526 AMFE: -0.577 GC content %: 51.185
Atauschii_AET5Gv20943200.5 AET5Gv20943200.5	Low	No	275	OG0025702		Get ORF Coding potential... Type: noncoding Potential: -0.853 Folding energies... MFEI: -27.527 AMFE: -0.569 GC content %: 48.364

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_AET5Gv20943200.4	SwissProt	2021-04-01	Q9Y535	1.7e-4
Atauschii_AET5Gv20943200.5	SwissProt	2021-04-01	Q9Y535	1.86e-7

Gene models

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