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_AET1Gv20387700 [ AET1Gv20387700]	1D	211989031	211993013	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_AET1Gv20387700.10 AET1Gv20387700.10	High	No	372	OG0068286		Get ORF Coding potential... Type: noncoding Potential: -1.423 Folding energies... MFEI: -17.419 AMFE: -0.450 GC content %: 38.710
Atauschii_AET1Gv20387700.2 AET1Gv20387700.2	Low	Yes	421	OG0024306		Get ORF Coding potential... Type: noncoding Potential: -1.503 Folding energies... MFEI: -22.613 AMFE: -0.626 GC content %: 36.105
Atauschii_AET1Gv20387700.3 AET1Gv20387700.3	Low	Yes	606	OG0024306		Get ORF Coding potential... Type: noncoding Potential: -0.959 Folding energies... MFEI: -27.442 AMFE: -0.660 GC content %: 41.584

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_AET1Gv20387700.3	Rfam	14.6	MIR1122	2.1e-8
Atauschii_AET1Gv20387700.2	Rfam	14.6	MIR1122	1.5e-8

Gene models

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