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
Lperrieri_LPERR01G18320 [ LPERR01G18320]	1	16209163	16215708	v1.4	Leersia perrieri (Ensembl Plants 51)	Coding? No

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
Lperrieri_LPERR01G18320.1 LPERR01G18320.1	Low	No	1514	OG0050999		Get ORF Coding potential... Type: noncoding Potential: -1.022 Folding energies... MFEI: -29.848 AMFE: -0.656 GC content %: 45.509
Lperrieri_LPERR01G18320.2 LPERR01G18320.2	High	No	682	OG0050999		Get ORF Coding potential... Type: noncoding Potential: -0.868 Folding energies... MFEI: -29.457 AMFE: -0.613 GC content %: 48.094

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
Lperrieri_LPERR01G18320.1	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).