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_AET5Gv20044900 [ AET5Gv20044900]	5D	15464454	15553539	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_AET5Gv20044900.10 AET5Gv20044900.10	Low	No	1076	OG0025479		Get ORF Coding potential... Type: coding Potential: 0.579 Folding energies... MFEI: -24.080 AMFE: -0.557 GC content %: 43.216
Atauschii_AET5Gv20044900.11 AET5Gv20044900.11	Low	No	334	OG0025479		Get ORF Coding potential... Type: coding Potential: 1.017 Folding energies... MFEI: -25.838 AMFE: -0.474 GC content %: 54.491
Atauschii_AET5Gv20044900.9 AET5Gv20044900.9	High	No	807	OG0025480		Get ORF Coding potential... Type: noncoding Potential: -0.567 Folding energies... MFEI: -31.735 AMFE: -0.625 GC content %: 50.805

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_AET5Gv20044900.10	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).