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_AET2Gv20144300 [ AET2Gv20144300]	2D	33649679	33653194	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_AET2Gv20144300.13 AET2Gv20144300.13	Low	Yes	2250	OG0015966		Get ORF Coding potential... Type: noncoding Potential: -1.104 Folding energies... MFEI: -26.084 AMFE: -0.685 GC content %: 38.089
Atauschii_AET2Gv20144300.15 AET2Gv20144300.15	High	No	677	OG0015966		Get ORF Coding potential... Type: noncoding Potential: -0.882 Folding energies... MFEI: -27.075 AMFE: -0.671 GC content %: 40.325
Atauschii_AET2Gv20144300.16 AET2Gv20144300.16	High	No	1409	OG0015966		Get ORF Coding potential... Type: noncoding Potential: -1.065 Folding energies... MFEI: -26.416 AMFE: -0.680 GC content %: 38.822

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_AET2Gv20144300.13	Rfam	14.6	MIR1122	2.3e-8

Gene models

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