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_AET7Gv20930000 [ AET7Gv20930000]	7D	487973340	487993033	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_AET7Gv20930000.1 AET7Gv20930000.1	High	No	1143	OG0016809		Get ORF Coding potential... Type: noncoding Potential: -0.954 Folding energies... MFEI: -28.408 AMFE: -0.634 GC content %: 44.794
Atauschii_AET7Gv20930000.10 AET7Gv20930000.10	High	No	372	OG0026312		Get ORF Coding potential... Type: noncoding Potential: -0.482 Folding energies... MFEI: -27.608 AMFE: -0.654 GC content %: 42.204
Atauschii_AET7Gv20930000.11 AET7Gv20930000.11	High	No	562	OG0016809		Get ORF Coding potential... Type: noncoding Potential: -1.249 Folding energies... MFEI: -24.181 AMFE: -0.626 GC content %: 38.612
Atauschii_AET7Gv20930000.15 AET7Gv20930000.15	High	No	290	OG0026312		Get ORF Coding potential... Type: noncoding Potential: -0.703 Folding energies... MFEI: -23.517 AMFE: -0.598 GC content %: 39.310
Atauschii_AET7Gv20930000.19 AET7Gv20930000.19	Low	No	460	OG0081203		Get ORF Coding potential... Type: noncoding Potential: -1.122 Folding energies... MFEI: -36.304 AMFE: -0.621 GC content %: 58.478
Atauschii_AET7Gv20930000.2 AET7Gv20930000.2	High	No	1090	OG0016809		Get ORF Coding potential... Type: noncoding Potential: -0.948 Folding energies... MFEI: -28.899 AMFE: -0.639 GC content %: 45.229
Atauschii_AET7Gv20930000.20 AET7Gv20930000.20	High	No	393	OG0081204		Get ORF Coding potential... Type: noncoding Potential: -0.926 Folding energies... MFEI: -25.242 AMFE: -0.616 GC content %: 40.967

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_AET7Gv20930000.19	RepBase (RepeatMasker)	2014-01-31	LINE/RTE-BovB; LTR/Copia

Gene models

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