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_AET5Gv20263200 [ AET5Gv20263200]	5D	132543489	132545316	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_AET5Gv20263200.1 AET5Gv20263200.1	Low	No	677	OG0076208		Get ORF Coding potential... Type: noncoding Potential: -0.616 Folding energies... MFEI: -33.929 AMFE: -0.647 GC content %: 52.437
Atauschii_AET5Gv20263200.3 AET5Gv20263200.3	High	No	333	OG0076209		Get ORF Coding potential... Type: noncoding Potential: -0.694 Folding energies... MFEI: -36.517 AMFE: -0.624 GC content %: 58.559
Atauschii_AET5Gv20263200.5 AET5Gv20263200.5	High	No	593	OG0076210		Get ORF Coding potential... Type: noncoding Potential: -1.164 Folding energies... MFEI: -16.965 AMFE: -0.532 GC content %: 31.872

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_AET5Gv20263200.1	RepBase (RepeatMasker)	2014-01-31	DNA/CMC-EnSpm

Gene models

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