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_AET1Gv20408600 [ AET1Gv20408600]	1D	225091626	225102040	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_AET1Gv20408600.10 AET1Gv20408600.10	High	No	491	OG0068330		Get ORF Coding potential... Type: noncoding Potential: -0.521 Folding energies... MFEI: -40.591 AMFE: -0.653 GC content %: 62.118
Atauschii_AET1Gv20408600.18 AET1Gv20408600.18	High	No	1202	OG0068331		Get ORF Coding potential... Type: noncoding Potential: -1.044 Folding energies... MFEI: -26.930 AMFE: -0.662 GC content %: 40.682
Atauschii_AET1Gv20408600.21 AET1Gv20408600.21	Low	No	1287	OG0024314		Get ORF Coding potential... Type: noncoding Potential: -1.266 Folding energies... MFEI: -26.301 AMFE: -0.609 GC content %: 43.201
Atauschii_AET1Gv20408600.22 AET1Gv20408600.22	High	No	238	OG0024314		Get ORF Coding potential... Type: noncoding Potential: -1.176 Folding energies... MFEI: -28.824 AMFE: -0.553 GC content %: 52.101

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_AET1Gv20408600.21	RepBase (RepeatMasker)	2014-01-31	SINE/tRNA

Gene models

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