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_AET6Gv20069000 [ AET6Gv20069000]	6D	13397808	13402366	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_AET6Gv20069000.13 AET6Gv20069000.13	Low	No	2198	OG0078092		Get ORF Coding potential... Type: noncoding Potential: -0.154 Folding energies... MFEI: -31.824 AMFE: -0.658 GC content %: 48.362
Atauschii_AET6Gv20069000.14 AET6Gv20069000.14	Low	No	406	OG0078093		Get ORF Coding potential... Type: noncoding Potential: -0.447 Folding energies... MFEI: -32.906 AMFE: -0.642 GC content %: 51.232

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_AET6Gv20069000.13	SwissProt	2021-04-01	Q53KS9	1.67e-23
Atauschii_AET6Gv20069000.14	SwissProt	2021-04-01	Q53KS8	1.41e-11

Gene models

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