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_AET5Gv20751600 [ AET5Gv20751600]	5D	431438682	431445436	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_AET5Gv20751600.1 AET5Gv20751600.1	Low	No	609	OG0077143		Get ORF Coding potential... Type: noncoding Potential: -1.358 Folding energies... MFEI: -29.704 AMFE: -0.648 GC content %: 45.813
Atauschii_AET5Gv20751600.20 AET5Gv20751600.20	High	No	1189	OG0016521		Get ORF Coding potential... Type: noncoding Potential: -1.093 Folding energies... MFEI: -30.984 AMFE: -0.609 GC content %: 50.883
Atauschii_AET5Gv20751600.24 AET5Gv20751600.24	High	No	1052	OG0016521		Get ORF Coding potential... Type: noncoding Potential: -1.098 Folding energies... MFEI: -31.825 AMFE: -0.633 GC content %: 50.285
Atauschii_AET5Gv20751600.45 AET5Gv20751600.45	Low	No	329	OG0077144		Get ORF Coding potential... Type: noncoding Potential: -0.920 Folding energies... MFEI: -24.134 AMFE: -0.540 GC content %: 44.681

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_AET5Gv20751600.45	SwissProt	2021-04-01	Q9FQ02	5.66e-8
Atauschii_AET5Gv20751600.1	RepBase (RepeatMasker)	2014-01-31	DNA/PIF-Harbinger

Gene models

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