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_AET3Gv20211100 [ AET3Gv20211100]	3D	53036146	53044746	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_AET3Gv20211100.10 AET3Gv20211100.10	High	No	382	OG0072178		Get ORF Coding potential... Type: noncoding Potential: -1.122 Folding energies... MFEI: -32.749 AMFE: -0.642 GC content %: 51.047
Atauschii_AET3Gv20211100.2 AET3Gv20211100.2	Low	No	775	OG0009882		Get ORF Coding potential... Type: noncoding Potential: -0.588 Folding energies... MFEI: -29.742 AMFE: -0.644 GC content %: 46.194
Atauschii_AET3Gv20211100.4 AET3Gv20211100.4	High	No	835	OG0009882		Get ORF Coding potential... Type: noncoding Potential: -0.961 Folding energies... MFEI: -29.365 AMFE: -0.634 GC content %: 46.347
Atauschii_AET3Gv20211100.5 AET3Gv20211100.5	High	No	950	OG0009882		Get ORF Coding potential... Type: noncoding Potential: -0.712 Folding energies... MFEI: -28.842 AMFE: -0.660 GC content %: 43.684
Atauschii_AET3Gv20211100.7 AET3Gv20211100.7	High	No	764	OG0009882		Get ORF Coding potential... Type: noncoding Potential: -0.925 Folding energies... MFEI: -29.777 AMFE: -0.634 GC content %: 46.990

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_AET3Gv20211100.2	SwissProt	2021-04-01	Q14442	1.68e-4

Gene models

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