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_AET1Gv20810100 [ AET1Gv20810100]	1D	435529671	435535580	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_AET1Gv20810100.1 AET1Gv20810100.1	High	No	812	OG0069109		Get ORF Coding potential... Type: noncoding Potential: -0.410 Folding energies... MFEI: -41.010 AMFE: -0.640 GC content %: 64.039
Atauschii_AET1Gv20810100.3 AET1Gv20810100.3	High	No	1083	OG0024432		Get ORF Coding potential... Type: noncoding Potential: -0.895 Folding energies... MFEI: -32.050 AMFE: -0.627 GC content %: 51.154
Atauschii_AET1Gv20810100.6 AET1Gv20810100.6	Low	No	710	OG0024432		Get ORF Coding potential... Type: noncoding Potential: -0.928 Folding energies... MFEI: -31.380 AMFE: -0.690 GC content %: 45.493

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_AET1Gv20810100.6	SwissProt	2021-04-01	Q42997	8.41e-10

Gene models

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