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_AET1Gv20635300 [ AET1Gv20635300]	1D	362013109	362017732	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_AET1Gv20635300.10 AET1Gv20635300.10	High	No	855	OG0024376		Get ORF Coding potential... Type: noncoding Potential: -1.220 Folding energies... MFEI: -22.702 AMFE: -0.581 GC content %: 39.064
Atauschii_AET1Gv20635300.11 AET1Gv20635300.11	High	No	1142	OG0024376		Get ORF Coding potential... Type: noncoding Potential: -1.045 Folding energies... MFEI: -27.058 AMFE: -0.569 GC content %: 47.548
Atauschii_AET1Gv20635300.9 AET1Gv20635300.9	Low	No	470	OG0068779		Get ORF Coding potential... Type: coding Potential: 0.193 Folding energies... MFEI: -24.936 AMFE: -0.572 GC content %: 43.617

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_AET1Gv20635300.9	RepBase (RepeatMasker)	2014-01-31	LTR

Gene models

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