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_AET6Gv20575600 [ AET6Gv20575600]	6D	302288324	302292135	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_AET6Gv20575600.12 AET6Gv20575600.12	Low	No	1897	OG0078928		Get ORF Coding potential... Type: noncoding Potential: -0.940 Folding energies... MFEI: -26.531 AMFE: -0.641 GC content %: 41.381
Atauschii_AET6Gv20575600.13 AET6Gv20575600.13	High	No	970	OG0007057		Get ORF Coding potential... Type: noncoding Potential: -0.811 Folding energies... MFEI: -25.526 AMFE: -0.641 GC content %: 39.794
Atauschii_AET6Gv20575600.14 AET6Gv20575600.14	High	No	881	OG0007057		Get ORF Coding potential... Type: noncoding Potential: -0.863 Folding energies... MFEI: -26.016 AMFE: -0.646 GC content %: 40.295
Atauschii_AET6Gv20575600.15 AET6Gv20575600.15	High	No	789	OG0007057		Get ORF Coding potential... Type: noncoding Potential: -0.849 Folding energies... MFEI: -26.084 AMFE: -0.641 GC content %: 40.684
Atauschii_AET6Gv20575600.16 AET6Gv20575600.16	High	No	689	OG0007057		Get ORF Coding potential... Type: noncoding Potential: -0.767 Folding energies... MFEI: -20.377 AMFE: -0.509 GC content %: 40.058
Atauschii_AET6Gv20575600.17 AET6Gv20575600.17	High	No	704	OG0007057		Get ORF Coding potential... Type: noncoding Potential: -0.834 Folding energies... MFEI: -26.009 AMFE: -0.623 GC content %: 41.761
Atauschii_AET6Gv20575600.18 AET6Gv20575600.18	High	No	568	OG0078929		Get ORF Coding potential... Type: noncoding Potential: -1.063 Folding energies... MFEI: -23.310 AMFE: -0.602 GC content %: 38.732

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_AET6Gv20575600.12	RepBase (RepeatMasker)	2014-01-31	LTR/Gypsy

Gene models

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