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_AET1Gv20495600 [ AET1Gv20495600]	1D	277870083	277892977	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_AET1Gv20495600.1 AET1Gv20495600.1	High	No	1710	OG0068504		Get ORF Coding potential... Type: noncoding Potential: -1.326 Folding energies... MFEI: -31.602 AMFE: -0.697 GC content %: 45.322
Atauschii_AET1Gv20495600.3 AET1Gv20495600.3	Low	No	1320	OG0068505		Get ORF Coding potential... Type: noncoding Potential: -1.294 Folding energies... MFEI: -26.023 AMFE: -0.635 GC content %: 40.985
Atauschii_AET1Gv20495600.5 AET1Gv20495600.5	High	No	839	OG0024328		Get ORF Coding potential... Type: noncoding Potential: -1.153 Folding energies... MFEI: -24.398 AMFE: -0.592 GC content %: 41.240

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_AET1Gv20495600.3	RepBase (RepeatMasker)	2014-01-31	DNA/PIF-Harbinger

Gene models

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