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_AET3Gv20243100 [ AET3Gv20243100]	3D	70112033	70112659	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_AET3Gv20243100.1 AET3Gv20243100.1	Low	No	464	OG0072244		Get ORF Coding potential... Type: noncoding Potential: -0.791 Folding energies... MFEI: -38.944 AMFE: -0.667 GC content %: 58.405
Atauschii_AET3Gv20243100.2 AET3Gv20243100.2	Low	No	451	OG0072245		Get ORF Coding potential... Type: noncoding Potential: -0.766 Folding energies... MFEI: -49.468 AMFE: -0.729 GC content %: 67.849

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_AET3Gv20243100.1	SwissProt	2021-04-01	O22755	7.12e-5
Atauschii_AET3Gv20243100.2	SwissProt	2021-04-01	O22755	5.93e-6
Atauschii_AET3Gv20243100.2	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).