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_AET1Gv20673200 [ AET1Gv20673200]	1D	383156763	383157770	v4	Aegilops tauschii (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
Atauschii_AET1Gv20673200.1 AET1Gv20673200.1	Low	No	798	OG0001138		Get ORF Coding potential... Type: noncoding Potential: -0.762 Folding energies... MFEI: -32.268 AMFE: -0.681 GC content %: 47.368
Atauschii_AET1Gv20673200.2 AET1Gv20673200.2	Low	No	338	OG0001138		Get ORF Coding potential... Type: noncoding Potential: -0.640 Folding energies... MFEI: -31.302 AMFE: -0.696 GC content %: 44.970

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_AET1Gv20673200.1	SwissProt	2021-04-01	Q6AZB8	3.41e-9
Atauschii_AET1Gv20673200.1	RepBase (RepeatMasker)	2014-01-31	DNA/PIF-Harbinger
Atauschii_AET1Gv20673200.2	RepBase (RepeatMasker)	2014-01-31	DNA/PIF-Harbinger

Gene models

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