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_AET6Gv20958300 [ AET6Gv20958300]	6D	483147778	483150493	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_AET6Gv20958300.10 AET6Gv20958300.10	Low	No	681	OG0079642		Get ORF Coding potential... Type: noncoding Potential: -1.009 Folding energies... MFEI: -32.584 AMFE: -0.625 GC content %: 52.129
Atauschii_AET6Gv20958300.2 AET6Gv20958300.2	High	No	816	OG0010170		Get ORF Coding potential... Type: noncoding Potential: -0.494 Folding energies... MFEI: -26.103 AMFE: -0.600 GC content %: 43.505
Atauschii_AET6Gv20958300.3 AET6Gv20958300.3	High	No	1566	OG0010170		Get ORF Coding potential... Type: noncoding Potential: -0.681 Folding energies... MFEI: -24.783 AMFE: -0.609 GC content %: 40.677
Atauschii_AET6Gv20958300.7 AET6Gv20958300.7	High	No	552	OG0010170		Get ORF Coding potential... Type: noncoding Potential: -0.189 Folding energies... MFEI: -27.627 AMFE: -0.612 GC content %: 45.109
Atauschii_AET6Gv20958300.8 AET6Gv20958300.8	High	No	661	OG0010170		Get ORF Coding potential... Type: noncoding Potential: -0.272 Folding energies... MFEI: -26.536 AMFE: -0.593 GC content %: 44.781

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_AET6Gv20958300.10	RepBase (RepeatMasker)	2014-01-31	LTR/Gypsy
Atauschii_AET6Gv20958300.10	SwissProt	2021-04-01	Q9H867	6.0e-8

Gene models

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