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_AET6Gv20816300 [ AET6Gv20816300]	6D	444812384	444823101	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_AET6Gv20816300.1 AET6Gv20816300.1	High	No	2314	OG0079387		Get ORF Coding potential... Type: noncoding Potential: -0.657 Folding energies... MFEI: -35.895 AMFE: -0.713 GC content %: 50.346
Atauschii_AET6Gv20816300.3 AET6Gv20816300.3	Low	No	1861	OG0026012		Get ORF Coding potential... Type: noncoding Potential: -0.955 Folding energies... MFEI: -25.782 AMFE: -0.624 GC content %: 41.322
Atauschii_AET6Gv20816300.6 AET6Gv20816300.6	High	No	663	OG0026012		Get ORF Coding potential... Type: noncoding Potential: -0.840 Folding energies... MFEI: -27.119 AMFE: -0.609 GC content %: 44.495
Atauschii_AET6Gv20816300.8 AET6Gv20816300.8	High	No	707	OG0079388		Get ORF Coding potential... Type: noncoding Potential: -0.094 Folding energies... MFEI: -41.711 AMFE: -0.666 GC content %: 62.659

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_AET6Gv20816300.3	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).